Human p97/VCP R155H mutant structure with a triazole inhibitor (NSC804515)
Nandi P, DeVore K, Wang F, Li S, Walker JD, Truong TT, LaPorte MG, Wipf P, Schlager H, McCleerey J, Paquette W, Columbres RCA, Gan T, Poh YP, Fromme P, Flint AJ, Wolf M, Huryn DM, Chou TF, Chiu PL
Commun Chem (2024) 7 pp. 177-177 [ DOI: doi:10.1038/s42004-024-01267-3 Pubmed: 39122922 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- N-[3-(2,5-difluoro-4-{[(4m)-5-(hexylsulfanyl)-4-(pyridin-3-yl)-4h-1,2,4-triazol-3-yl]methoxy}phenyl)prop-2-yn-1-yl]propanamide (513 Da, Ligand)
- Transitional endoplasmic reticulum atpase (89 kDa, Protein from Homo sapiens)
- P97/vcp aaa+ atpase r155h mutant/nsc804515 (536 kDa, Complex from Homo sapiens)
80S ribosome with angiogenin and ternary complex in rabbit reticulocyte lysates
Loveland AB, Koh CS, Ganesan R, Jacobson A, Korostelev AA
Nature (2024) 630 pp. 769-776 [ DOI: doi:10.1038/s41586-024-07508-8 Pubmed: 38718836 ]
80S ribosome with angiogenin, in vitro assembled complex without substrate tRNA
Loveland AB, Koh CS, Ganesan R, Jacobson A, Korostelev AA
Nature (2024) 630 pp. 769-776 [ DOI: doi:10.1038/s41586-024-07508-8 Pubmed: 38718836 ]
- 80s ribosome (Complex from Oryctolagus cuniculus)
- 80s ribosome with angiogenin assembled in vitro without substrate trna (4 MDa, Complex)
- Angiogenin (Complex from Homo sapiens)
- Trna-fmet (Complex from Escherichia coli)
- Mrna (Complex from Homo sapiens)
80S ribosome with angiogenin and tRNAAla
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 9bdn
Q-score: 0.469
Loveland AB, Koh CS, Ganesan R, Jacobson A, Korostelev AA
Nature (2024) 630 pp. 769-776 [ DOI: doi:10.1038/s41586-024-07508-8 Pubmed: 38718836 ]
- 60s ribosomal protein l8 (26 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l15 (24 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l18a (20 kDa, Protein from Oryctolagus cuniculus)
- Mrna (8 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l14 (16 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s13 (17 kDa, Protein from Oryctolagus cuniculus)
- 28s rrna (1 MDa, RNA from Oryctolagus cuniculus)
- 60s acidic ribosomal protein p0 (21 kDa, Protein from Oryctolagus cuniculus)
- Small ribosomal subunit protein es19 (15 kDa, Protein from Oryctolagus cuniculus)
- Es26 (11 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l30 (10 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l5 (34 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s9 (21 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s18 (16 kDa, Protein from Oryctolagus cuniculus)
- 18s rrna (602 kDa, RNA from Oryctolagus cuniculus)
- 60s ribosomal protein l35 (14 kDa, Protein from Oryctolagus cuniculus)
- Trnafmet (24 kDa, RNA from Escherichia coli)
- 40s ribosomal protein s15 (14 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l3 (45 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein el29 (26 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s29 (6 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l10 (24 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l35a (12 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l36 (11 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l31 (12 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein ul23 (13 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l4 (41 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s2 (24 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein el40 (6 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s23 (15 kDa, Protein from Oryctolagus cuniculus)
- Angiogenin (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s4 (29 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein ul13 (23 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s17 (15 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s6 (27 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l27 (15 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s15a (14 kDa, Protein from Oryctolagus cuniculus)
- 40s_sa_c domain-containing protein (24 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein el18 (21 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s27 (9 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l7 (26 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s11 (17 kDa, Protein from Oryctolagus cuniculus)
- El41 (3 kDa, Protein from Oryctolagus cuniculus)
- El42 (12 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l24 (14 kDa, Protein from Oryctolagus cuniculus)
- Small ribosomal subunit protein us11 (14 kDa, Protein from Oryctolagus cuniculus)
- 80s ribosome with angiogenin and trnaala (4 MDa, Complex)
- Ribosomal protein s5 (21 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s25 (8 kDa, Protein from Oryctolagus cuniculus)
- 5s rrna (38 kDa, RNA from Oryctolagus cuniculus)
- 60s ribosomal protein l21 (18 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l39 (6 kDa, Protein from Oryctolagus cuniculus)
- Ul11 (16 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s10 (11 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l9 (21 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l23 (13 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l34 (12 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein el22 (11 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s8 (24 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein el13 (24 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s24 (14 kDa, Protein from Oryctolagus cuniculus)
- Receptor of activated protein c kinase 1 (34 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l26 (15 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l37 (10 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s20 (11 kDa, Protein from Oryctolagus cuniculus)
- Trnaala (24 kDa, RNA from Saccharomyces cerevisiae)
- 40s ribosomal protein s3a (24 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s12 (13 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l19 (21 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l27a (16 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein el38 (8 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s3 (25 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l17 (17 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l37a (10 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein el32 (15 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s28 (7 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l6 (28 kDa, Protein from Oryctolagus cuniculus)
- Es21 (9 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein el8 (27 kDa, Protein from Oryctolagus cuniculus)
- 5.8s rrna (50 kDa, RNA from Oryctolagus cuniculus)
- 60s ribosomal protein l11 (19 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l28 (14 kDa, Protein from Oryctolagus cuniculus)
- Small ribosomal subunit protein us9 (16 kDa, Protein from Oryctolagus cuniculus)
- Small ribosomal subunit protein es7 (21 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s30 (6 kDa, Protein from Oryctolagus cuniculus)
80S ribosome bound with angiogenin and complex of eEF1A and Ala-tRNAAla
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 9bdp
Q-score: 0.371
Loveland AB, Koh CS, Ganesan R, Jacobson A, Korostelev AA
Nature (2024) 630 pp. 769-776 [ DOI: doi:10.1038/s41586-024-07508-8 Pubmed: 38718836 ]
- 60s ribosomal protein l8 (26 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l15 (24 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l18a (20 kDa, Protein from Oryctolagus cuniculus)
- Mrna (8 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l14 (16 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s13 (17 kDa, Protein from Oryctolagus cuniculus)
- 28s rrna (1 MDa, RNA from Oryctolagus cuniculus)
- 60s acidic ribosomal protein p0 (21 kDa, Protein from Oryctolagus cuniculus)
- Small ribosomal subunit protein es19 (15 kDa, Protein from Oryctolagus cuniculus)
- Es26 (11 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l30 (10 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l5 (34 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s9 (21 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s18 (16 kDa, Protein from Oryctolagus cuniculus)
- 18s rrna (602 kDa, RNA from Oryctolagus cuniculus)
- 60s ribosomal protein l35 (14 kDa, Protein from Oryctolagus cuniculus)
- Trnafmet (24 kDa, RNA from Escherichia coli)
- 40s ribosomal protein s15 (14 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l3 (45 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein el29 (26 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s29 (6 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l10 (24 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l35a (12 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l36 (11 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l31 (12 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein ul23 (13 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l4 (41 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s2 (24 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein el40 (6 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s23 (15 kDa, Protein from Oryctolagus cuniculus)
- Angiogenin (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s25 (29 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s4 (29 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein ul13 (23 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s17 (15 kDa, Protein from Oryctolagus cuniculus)
- 80s ribosome bound with angiogenin and complex of eef1a and ala-trnaala (4 MDa, Complex)
- 40s ribosomal protein s6 (27 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l27 (15 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s15a (14 kDa, Protein from Oryctolagus cuniculus)
- 40s_sa_c domain-containing protein (24 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein el18 (21 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s27 (9 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l7 (26 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s11 (17 kDa, Protein from Oryctolagus cuniculus)
- El41 (3 kDa, Protein from Oryctolagus cuniculus)
- El42 (12 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein l24 (14 kDa, Protein from Oryctolagus cuniculus)
- Small ribosomal subunit protein us11 (14 kDa, Protein from Oryctolagus cuniculus)
- Ribosomal protein s5 (21 kDa, Protein from Oryctolagus cuniculus)
- 5s rrna (38 kDa, RNA from Oryctolagus cuniculus)
- 60s ribosomal protein l21 (18 kDa, Protein from Oryctolagus cuniculus)
- Elongation factor 1-alpha (50 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l39 (6 kDa, Protein from Oryctolagus cuniculus)
- Ul11 (16 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s10 (11 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l9 (21 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l23 (13 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l34 (12 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein el22 (11 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s8 (24 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein el13 (24 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s24 (14 kDa, Protein from Oryctolagus cuniculus)
- Receptor of activated protein c kinase 1 (34 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l26 (15 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l37 (10 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s20 (11 kDa, Protein from Oryctolagus cuniculus)
- Trnaala (24 kDa, RNA from Saccharomyces cerevisiae)
- 40s ribosomal protein s3a (24 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s12 (13 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l19 (21 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l27a (16 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein el38 (8 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s3 (25 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l17 (17 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l37a (10 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein el32 (15 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s28 (7 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l6 (28 kDa, Protein from Oryctolagus cuniculus)
- Es21 (9 kDa, Protein from Oryctolagus cuniculus)
- Large ribosomal subunit protein el8 (27 kDa, Protein from Oryctolagus cuniculus)
- 5.8s rrna (50 kDa, RNA from Oryctolagus cuniculus)
- 60s ribosomal protein l11 (19 kDa, Protein from Oryctolagus cuniculus)
- 60s ribosomal protein l28 (14 kDa, Protein from Oryctolagus cuniculus)
- Small ribosomal subunit protein us9 (16 kDa, Protein from Oryctolagus cuniculus)
- Small ribosomal subunit protein es7 (21 kDa, Protein from Oryctolagus cuniculus)
- 40s ribosomal protein s30 (6 kDa, Protein from Oryctolagus cuniculus)
ATP-1 state of Bcs1 (C7 symmetrized)
Resolution: 3.13 Å
EM Method: Single-particle
Fitted PDBs: 8t5u
Q-score: 0.449
Zhan J, Zeher A, Huang R, Tang WK, Jenkins LM, Xia D
Nat Commun (2024) 15 pp. 4655-4655 [ DOI: doi:10.1038/s41467-024-49029-y Pubmed: 38821922 ]
- Heptameric bcs1 in uniform atp-bound state captured during active atpase cycle (340 kDa, Complex from Mus musculus)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Mitochondrial chaperone bcs1 (48 kDa, Protein from Mus musculus)
- Magnesium ion (24 Da, Ligand)
ATP-1 state of Bcs1 (unsymmetrized)
Resolution: 3.77 Å
EM Method: Single-particle
Fitted PDBs: 8ti0
Q-score: 0.312
Zhan J, Zeher A, Huang R, Tang WK, Jenkins LM, Xia D
Nat Commun (2024) 15 pp. 4655-4655 [ DOI: doi:10.1038/s41467-024-49029-y Pubmed: 38821922 ]
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Mitochondrial chaperone bcs1 (48 kDa, Protein from Mus musculus)
- Magnesium ion (24 Da, Ligand)
- Heptameric bcs1 in uniform atp-bound state captured in active atpase cycle (340 kDa, Complex from Mus musculus)
hPAD4 bound to Activating Fab hA362
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8smk
Q-score: 0.419
Zhou X, Kong S, Maker A, Remesh SG, Leung KK, Verba KA, Wells JA
Nat Chem Biol (2024) 20 pp. 742-750 [ DOI: doi:10.1038/s41589-023-01535-8 Pubmed: 38308046 ]
- Protein-arginine deiminase type-4 (77 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- Activating fab 362 heavy chain (24 kDa, Protein from Homo sapiens)
- Hpad4 bound to activating fab ha362 (248 kDa, Complex from Homo sapiens)
- Activating fab 362 light chain (23 kDa, Protein from Homo sapiens)
hPAD4 bound to inhibitory Fab hI365
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8sml
Q-score: 0.399
Zhou X, Kong S, Maker A, Remesh SG, Leung KK, Verba KA, Wells JA
Nat Chem Biol (2024) 20 pp. 742-750 [ DOI: doi:10.1038/s41589-023-01535-8 Pubmed: 38308046 ]
- Protein-arginine deiminase type-4 (77 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- Fab hi365 light chain (23 kDa, Protein from Homo sapiens)
- Hpad4 bound to inhibitory fab hi365 (248 kDa, Complex from Homo sapiens)
- Fab hi365 heavy chain (24 kDa, Protein from Homo sapiens)
CryoEM Structure of Maize Streak Virus (MSV) - Geminivirus
Resolution: 3.17 Å
EM Method: Single-particle
Fitted PDBs: 8ugq
Q-score: 0.481
McKenna R, Bennett AB, Mietzsch M, Hull JA
To Be Published
- Capsid protein (26 kDa, Protein from Maize streak virus genotype A (isolate Nigeria))
- Dna (5'-d(p*cp*gp*ap*ap*cp*cp*cp*cp*a)-3') (2 kDa, DNA from Maize streak virus genotype A (isolate Nigeria))
- Maize streak virus genotype a (isolate nigeria) (Virus from Maize streak virus genotype A (isolate Nigeria))