Cryo-EM structure of the N2-4N2C402 complex at a resolution of 1.9 angstrom
Resolution: 1.9 Å
EM Method: Single-particle
Fitted PDBs: 8zr4
Q-score: 0.793
Wang X, Yang Q, Chu BX, Wu XD, Zhang ZL
Cell Host Microbe (2024) [ ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- 4n2c402_fab_l (12 kDa, Protein from Homo sapiens)
- A complex of n2 with 4n2c402-fab (500 kDa, Complex from Homo sapiens)
- Neuraminidase (43 kDa, Protein from Influenza A virus)
- Water (18 Da, Ligand)
- 4n2c402_fab_h (15 kDa, Protein from Homo sapiens)
Structure of an STK19-containing TC-NER complex
Resolution: 1.9 Å
EM Method: Single-particle
Fitted PDBs: 9bz0
Q-score: 0.448
Mevissen TET, Kummecke M, Schmid EW, Farnung L, Walter JC
Cell (2024) 187 pp. 7091-7106.e24 [ DOI: doi:10.1016/j.cell.2024.10.020 Pubmed: 39547228 ]
- Transcription-coupled nucleotide excision repair complex (Complex from Homo sapiens)
- Dna excision repair protein ercc-8 (44 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
- Rna (5'-r(p*ap*up*cp*gp*ap*gp*ap*gp*gp*a)-3') (3 kDa, RNA from synthetic construct)
- Dna (49-mer) (27 kDa, DNA from synthetic construct)
- Inactive serine/threonine-protein kinase 19 (28 kDa, Protein from Homo sapiens)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
- Rna polymerase ii subunit j (13 kDa, Protein from Sus scrofa)
- Transcription elongation factor 1 homolog (9 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
- Dna (35-mer) (27 kDa, DNA from synthetic construct)
- Dna excision repair protein ercc-6 (168 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
- Water (18 Da, Ligand)
- Rna polymerase rpb4/rpc9 core domain-containing protein (16 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Sus scrofa)
- Magnesium ion (24 Da, Ligand)
- Det1- and ddb1-associated protein 1 (12 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit (218 kDa, Protein from Sus scrofa)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
- Uv-stimulated scaffold protein a (80 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit beta (142 kDa, Protein from Sus scrofa)
- Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa)
Resolution: 1.78 Å
EM Method: Single-particle
Fitted PDBs: 8qyx
Q-score: 0.703
Wiechert F, Unbehaun A, Sprink T, Seibel H, Burger J, Loerke J, Mielke T, Diebolder CA, Schacherl M, Spahn CMT
Nucleic Acids Res (2025) 53 [ DOI: doi:10.1093/nar/gkae1191 Pubmed: 39658079 ]
- 60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
- Human mature large ribosomal subunit (Complex from Homo sapiens)
- 60s ribosomal protein l29 (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
- 5.8s rrna (50 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul3 (46 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37 (11 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- 1,4-diaminobutane (88 Da, Ligand)
- 60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
- Spermine (202 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- 60s ribosomal protein l24 (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- 60s ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul30 (29 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein el40 (14 kDa, Protein from Homo sapiens)
- Spermidine (145 Da, Ligand)
- 60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul2 (28 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l34 (13 kDa, Protein from Homo sapiens)
- 28s rrna (1 MDa, RNA from Homo sapiens)
- 60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
- 5s rrna (38 kDa, RNA from Homo sapiens)
- Ribosomal protein ul16-like (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul15 (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
Cryo-EM reconstruction of TC-NER transcription elongation complex with STK19 (Consensus refinement)
Mevissen TET, Kummecke M, Schmid EW, Farnung L, Walter JC
Cell (2024) 187 pp. 7091-7106.e24 [ DOI: doi:10.1016/j.cell.2024.10.020 Pubmed: 39547228 ]
- Rna polymerase ii proteins (Complex from Sus scrofa)
- Transcription-coupled nucleotide excision repair complex (Complex)
- Nucleic acid (Complex from synthetic construct)
- Csb, uvssa (Complex from Homo sapiens)
- Dda1, elof1, stk19 (Complex from Homo sapiens)
- Csa, ddb1 (Complex from Homo sapiens)
Cryo-EM structure of IMPDH2 bound to IMP and GAD
Resolution: 1.82 Å
EM Method: Single-particle
Fitted PDBs: 9dmu
Q-score: 0.802
Chen YJ, Iyer SV, Hsieh DC, Li B, Elias HK, Wang T, Li J, Ganbold M, Lien MC, Peng YC, Xie XP, Jayewickreme CD, van den Brink MRM, Brady SF, Lim SK, Parada LF
Nature (2024) 636 pp. 466-473 [ DOI: doi:10.1038/s41586-024-08224-z Pubmed: 39567689 ]
- Potassium ion (39 Da, Ligand)
- [[(2~{r},3~{s},4~{r},5~{r})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{r},3~{s},4~{r},5~{r})-3,4-bis(oxidanyl)-5-[3-(thiophen-2-ylcarbonylamino)pyridin-1-yl]oxolan-2-yl]methyl hydrogen phosphate (746 Da, Ligand)
- Inosinic acid (348 Da, Ligand)
- Inosine-5'-monophosphate dehydrogenase 2 (56 kDa, Protein from Homo sapiens)
- Ternary complex of impdh2 bound to imp and gad (Complex from Homo sapiens)
- Water (18 Da, Ligand)
Cryo-EM structure of ferritin variant R63BrThA/E67BrThA
Resolution: 1.78 Å
EM Method: Single-particle
Fitted PDBs: 9jqb
Q-score: 0.835
Tsou JC, Tsou CJ, Wang CH, Ko AA, Wang YH, Liang HH, Sun JC, Huang KF, Ko TP, Lin SY, Wang YS
J Am Chem Soc (2024) 146 pp. 33309-33315 [ Pubmed: 39499210 DOI: doi:10.1021/jacs.4c14446 ]
- Ferritin heavy chain (21 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Sodium ion (22 Da, Ligand)
- 24-mer complex of ferritin variant r63brtha/e67brtha (Complex from Homo sapiens)
Cryo-EM structure of ferritin variant R63BrThA/E67BrThA with Cu(II)
Resolution: 1.73 Å
EM Method: Single-particle
Fitted PDBs: 9jqc
Q-score: 0.828
Tsou JC, Tsou CJ, Wang CH, Ko AA, Wang YH, Liang HH, Sun JC, Huang KF, Ko TP, Lin SY, Wang YS
J Am Chem Soc (2024) 146 pp. 33309-33315 [ Pubmed: 39499210 DOI: doi:10.1021/jacs.4c14446 ]
- Water (18 Da, Ligand)
- Ferritin heavy chain (21 kDa, Protein from Homo sapiens)
- 24-mer complex of ferritin variant r63brtha/e67brtha with cu(ii) (Complex from Homo sapiens)
- Copper (ii) ion (63 Da, Ligand)
Cryo-EM structure of ferritin variant R63MeH/R67MeH
Resolution: 1.81 Å
EM Method: Single-particle
Fitted PDBs: 9jqd
Q-score: 0.821
Tsou JC, Tsou CJ, Wang CH, Ko AA, Wang YH, Liang HH, Sun JC, Huang KF, Ko TP, Lin SY, Wang YS
J Am Chem Soc (2024) 146 pp. 33309-33315 [ Pubmed: 39499210 DOI: doi:10.1021/jacs.4c14446 ]
- 24-mer complex of ferritin variant r63meh/r67meh (Complex from Homo sapiens)
- Water (18 Da, Ligand)
- Ferritin heavy chain (21 kDa, Protein from Homo sapiens)
- Fe (iii) ion (55 Da, Ligand)
Cryo-EM structure of ferritin variant R63MeH/R67MeH with Cu(II)
Resolution: 1.83 Å
EM Method: Single-particle
Fitted PDBs: 9jqe
Q-score: 0.8
Tsou JC, Tsou CJ, Wang CH, Ko AA, Wang YH, Liang HH, Sun JC, Huang KF, Ko TP, Lin SY, Wang YS
J Am Chem Soc (2024) 146 pp. 33309-33315 [ Pubmed: 39499210 DOI: doi:10.1021/jacs.4c14446 ]
- Water (18 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- 24-mer complex of ferritin variant r63meh/r67meh with cu(ii) (Complex from Homo sapiens)
- Ferritin heavy chain (21 kDa, Protein from Homo sapiens)
Human mitochondrial RNase Z with tRNA-His-CCA, SDR5C1/TRMT10C focus
Resolution: 1.9 Å
EM Method: Single-particle
Fitted PDBs: 9gch
Q-score: 0.737
EMBO J (2024) 43 pp. 6573-6590 [ DOI: doi:10.1038/s44318-024-00297-w Pubmed: 39516281 ]
- Mt-trna-his-cca (22 kDa, RNA from Homo sapiens)
- Rnasez (Complex from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Trna methyltransferase 10 homolog c (42 kDa, Protein from Homo sapiens)
- Rnasez with mt-trna-his (250 kDa, Complex)
- Magnesium ion (24 Da, Ligand)
- S-adenosylmethionine (398 Da, Ligand)
- Mt-trna-his (Complex from Homo sapiens)
- Water (18 Da, Ligand)
- 3-hydroxyacyl-coa dehydrogenase type-2 (26 kDa, Protein from Homo sapiens)