Versatile Aromatic Prenyltransferase auraA in complex with DMAPP and cyclo-(L-Val-L-His)
Resolution: 2.45 Å
EM Method: Single-particle
Fitted PDBs: 8y9d
Q-score: 0.635
Wang W, Wang P, Ma C, Li K, Wang Z, Liu Y, Wang L, Zhang G, Che Q, Zhu T, Zhang Y, Li D
Nat Commun (2025) 16 pp. 144-144 [ DOI: doi:10.1038/s41467-024-55537-8 Pubmed: 39747040 ]
- Water (18 Da, Ligand)
- Dimethylallyl s-thiolodiphosphate (262 Da, Ligand)
- (3~{s},6~{s})-3-(1~{h}-imidazol-4-ylmethyl)-6-propan-2-yl-piperazine-2,5-dione (236 Da, Ligand)
- Versatile aromatic prenyltransferase auraa in complex with dmapp and cyclo-(l-val-l-his) (Complex from Penicillium)
- Versatile aromatic prenyltransferase auraa (46 kDa, Protein from Penicillium)
Versatile Aromatic Prenyltransferase auraA for Imidazole-Containing Diketopiperazines
Versatile Aromatic Prenyltransferase auraA in complex with DMSPP and cyclo-(L-Val-DH-His)
Resolution: 2.67 Å
EM Method: Single-particle
Fitted PDBs: 8y9g
Q-score: 0.607
Wang W, Wang P, Ma C, Li K, Wang Z, Liu Y, Wang L, Zhang G, Che Q, Zhu T, Zhang Y, Li D
Nat Commun (2025) 16 pp. 144-144 [ Pubmed: 39747040 DOI: doi:10.1038/s41467-024-55537-8 ]
- Water (18 Da, Ligand)
- (3~{z},6~{s})-3-(1~{h}-imidazol-4-ylmethylidene)-6-propan-2-yl-piperazine-2,5-dione (234 Da, Ligand)
- Versatile aromatic prenyltransferase auraa (46 kDa, Protein from Penicillium)
- Versatile aromatic prenyltransferase auraa in complex with dmspp and cyclo-(l-val-dh-his) (Complex from Penicillium)
- Dimethylallyl s-thiolodiphosphate (262 Da, Ligand)
Versatile Aromatic Prenyltransferase auraA mutant-Y207A in complex with DMSPP
EDS1-SAG101-NRG1A L134E heterotrimer
Nature (2025) [ DOI: doi:10.1038/s41586-024-08517-3 ]
- Senescence-associated carboxylesterase 101 (62 kDa, Protein from Arabidopsis thaliana)
- [[(2~{r},3~{r},4~{r},5~{r})-5-(6-aminopurin-9-yl)-4-[(2~{s},3~{r},4~{s},5~{r})-5-[[[[(2~{r},3~{s},4~{r},5~{r})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxymethyl]-3,4-bis(oxidanyl)oxolan-2-yl]oxy-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate (1 kDa, Ligand)
- Protein eds1 (71 kDa, Protein from Arabidopsis thaliana)
- Eds1-sag101-nrg1a l134e heterotrimer (Complex from Arabidopsis thaliana)
- Probable disease resistance protein at5g66900 (92 kDa, Protein from Arabidopsis thaliana)
EDS1-SAG101-NRG1C heterotrimer
Nature (2025) [ DOI: doi:10.1038/s41586-024-08517-3 ]
- Probable disease resistance protein at5g66890 (47 kDa, Protein from Arabidopsis thaliana)
- Senescence-associated carboxylesterase 101 (62 kDa, Protein from Arabidopsis thaliana)
- [[(2~{r},3~{r},4~{r},5~{r})-5-(6-aminopurin-9-yl)-4-[(2~{s},3~{r},4~{s},5~{r})-5-[[[[(2~{r},3~{s},4~{r},5~{r})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxymethyl]-3,4-bis(oxidanyl)oxolan-2-yl]oxy-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono hydrogen phosphate (1 kDa, Ligand)
- Protein eds1 (71 kDa, Protein from Arabidopsis thaliana)
- Eds1-sag101-nrg1c heterotrimer (Complex from Arabidopsis thaliana)
Structure of the HER2 (S310F) - pertuzumab (T30S/D31A) complex
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 9l1s
Q-score: 0.459
Bai X, Xu L, Wang Z, Zhuang X, Ning J, Sun Y, Wang H, Guo Y, Xu Y, Guo J, Chen S, Pan L
To Be Published
- Pertuzumab fab heavy chain (24 kDa, Protein from Homo sapiens)
- Receptor tyrosine-protein kinase erbb-2 (70 kDa, Protein from Homo sapiens)
- Her2 (s310f) - pertuzumab (t30s/d31a) complex (Complex from Homo sapiens)
- Pertuzumab fab light chain (23 kDa, Protein from Homo sapiens)
Structure of interleukin receptor common gamma chain (IL2Rgamma/CD132) in complex with 2D4
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 9jqt
Q-score: 0.555
Yin H, Li L, Feng X, Wang Z, Zheng M, Zhao J, Fan X, Wu W, Gao L, Zhan Y, Zhao M, Lu Q
Signal Transduct Target Ther (2024) 9 pp. 323-323 [ Pubmed: 39551768 DOI: doi:10.1038/s41392-024-02017-6 ]
- 2d4-light chain (23 kDa, Protein from Homo sapiens)
- Anti-fab nanobody (14 kDa, Protein from Lama glama)
- Interleukin receptor common gamma chain (il2rgamma/cd132) in complex with 2d4 (Complex from Homo sapiens)
- Cytokine receptor common subunit gamma (28 kDa, Protein from Homo sapiens)
- 2d4-heavy chain (23 kDa, Protein from Homo sapiens)
SSU(head) structure derived from the SSU sample of the mitoribosome from T. gondii.
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 9fi8
Q-score: 0.269
Wang C, Kassem S, Rocha REO, Sun P, Nguyen TT, Kloehn J, Liu X, Brusini L, Bonavoglia A, Barua S, Boissier F, Lucia Del Cistia M, Peng H, Tang X, Xie F, Wang Z, Vadas O, Suo X, Hashem Y, Soldati-Favre D, Jia Y
Nat Commun (2024) 15 pp. 10689-10689 [ Pubmed: 39690155 DOI: doi:10.1038/s41467-024-55033-z ]
- Ulr24 (5 kDa, RNA from Toxoplasma gondii)
- Ms155 (14 kDa, Protein from Toxoplasma gondii)
- Ms157 (18 kDa, Protein from Toxoplasma gondii)
- Ms159 (9 kDa, Protein from Toxoplasma gondii)
- Ms33/ms27 (46 kDa, Protein from Toxoplasma gondii)
- Rna19-ssu (8 kDa, RNA from Toxoplasma gondii)
- Acylphosphatase-like domain-containing protein (14 kDa, Protein from Toxoplasma gondii)
- Dna double-strand break repair rad50 atpase (40 kDa, Protein from Toxoplasma gondii)
- Ulr23 (3 kDa, RNA from Toxoplasma gondii)
- Small ribosomal subunit protein ms35 mitochondrial conserved domain-containing protein (27 kDa, Protein from Toxoplasma gondii)
- Ssub-ssu (18 kDa, RNA from Toxoplasma gondii)
- 30s ribosomal protein s5, putative (49 kDa, Protein from Toxoplasma gondii)
- Ms141 (82 kDa, Protein from Toxoplasma gondii)
- Ap2 domain transcription factor ap2ix-6 (20 kDa, Protein from Toxoplasma gondii)
- Ssud (18 kDa, RNA from Toxoplasma gondii)
- Ribosomal protein s14, putative (12 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein s9, putative (17 kDa, Protein from Toxoplasma gondii)
- Rna5-ssu (10 kDa, RNA from Toxoplasma gondii)
- Us10m (26 kDa, Protein from Toxoplasma gondii)
- Ms161 (3 kDa, Protein from Toxoplasma gondii)
- Ms151 (17 kDa, Protein from Toxoplasma gondii)
- Rna9-ssu (21 kDa, RNA from Toxoplasma gondii)
- Ssu head structure sample of the mitoribosome from t. gondii. (Complex from Toxoplasma gondii)
- Small ribosomal subunit protein ms29,ms29(dap3) (57 kDa, Protein from Toxoplasma gondii)
- Rap domain-containing protein (66 kDa, Protein from Toxoplasma gondii)
- Ms158 (10 kDa, Protein from Toxoplasma gondii)
- Ulr22 (4 kDa, RNA from Toxoplasma gondii)
- Ms152 (19 kDa, Protein from Toxoplasma gondii)
- Ms149 (10 kDa, Protein from Toxoplasma gondii)
SSU(body) structure derived from the SSU sample of the mitoribosome from T. gondii.
Resolution: 3.29 Å
EM Method: Single-particle
Fitted PDBs: 9fia
Q-score: 0.353
Wang C, Kassem S, Rocha REO, Sun P, Nguyen TT, Kloehn J, Liu X, Brusini L, Bonavoglia A, Barua S, Boissier F, Lucia Del Cistia M, Peng H, Tang X, Xie F, Wang Z, Vadas O, Suo X, Hashem Y, Soldati-Favre D, Jia Y
Nat Commun (2024) 15 pp. 10689-10689 [ Pubmed: 39690155 DOI: doi:10.1038/s41467-024-55033-z ]
- Unidentified peptide (869 Da, Protein from Toxoplasma gondii)
- Mitochondrial ribosomal protein, ms137 (102 kDa, Protein from Toxoplasma gondii)
- Putative homeodomain containing protein (67 kDa, Protein from Toxoplasma gondii)
- Unidentified peptide (2 kDa, Protein from Toxoplasma gondii)
- Rna30 (9 kDa, RNA from Toxoplasma gondii)
- Rna33 (22 kDa, RNA from Toxoplasma gondii)
- Ulr13 (1 kDa, RNA from Toxoplasma gondii)
- Mitochondrial ribosomal protein, ms140 (116 kDa, Protein from Toxoplasma gondii)
- Rna8 (34 kDa, RNA from Toxoplasma gondii)
- Mitochondrial ribosomal protein, ms144 (59 kDa, Protein from Toxoplasma gondii)
- Unidentified peptide (954 Da, Protein from Toxoplasma gondii)
- Ssub (39 kDa, RNA from Toxoplasma gondii)
- Rna15 (8 kDa, RNA from Toxoplasma gondii)
- Putative mitochondrial ribosomal protein s6-2 (19 kDa, Protein from Toxoplasma gondii)
- Unidentified peptide (1 kDa, Protein from Toxoplasma gondii)
- Unidentified peptide (1 kDa, Protein from Toxoplasma gondii)
- Mitochondrial ribosomal protein, ms26 (59 kDa, Protein from Toxoplasma gondii)
- Unidentified peptide (4 kDa, Protein from Toxoplasma gondii)
- Rna17 (15 kDa, RNA from Toxoplasma gondii)
- Ssue (15 kDa, RNA from Toxoplasma gondii)
- Ulr21 (3 kDa, RNA from Toxoplasma gondii)
- Dnaj domain-containing protein (25 kDa, Protein from Toxoplasma gondii)
- Unidentified peptide (2 kDa, Protein from Toxoplasma gondii)
- Unidentified peptide (1 kDa, Protein from Toxoplasma gondii)
- Mitochondrial ribosomal protein, ms156 (30 kDa, Protein from Toxoplasma gondii)
- Rna5 (26 kDa, RNA from Toxoplasma gondii)
- Ssuf (19 kDa, RNA from Toxoplasma gondii)
- Mitochondrial ribosomal protein, ms26 (51 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein s18, putative (84 kDa, Protein from Toxoplasma gondii)
- Rna13 (11 kDa, RNA from Toxoplasma gondii)
- Ulr19 (7 kDa, RNA from Toxoplasma gondii)
- Ribosomal protein, us2m (34 kDa, Protein from Toxoplasma gondii)
- Pentatricopeptide repeat domain-containing protein (74 kDa, Protein from Toxoplasma gondii)
- Mitochondrial ribosomal protein, ms153 (28 kDa, Protein from Toxoplasma gondii)
- Ulr14 (567 Da, RNA from Toxoplasma gondii)
- Mitochondrial ribosomal protein, ms23 (41 kDa, Protein from Toxoplasma gondii)
- Unidentified peptide (698 Da, Protein from Toxoplasma gondii)
- Putative 30s ribosomal protein s16 (19 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein s11, putative (43 kDa, Protein from Toxoplasma gondii)
- Mitochondrial ribosomal protein, ms145 (75 kDa, Protein from Toxoplasma gondii)
- Rap domain-containing protein (168 kDa, Protein from Toxoplasma gondii)
- Putative 30s ribosomal protein s15 (44 kDa, Protein from Toxoplasma gondii)
- Mitochondrial ribosomal protein, ms47 (44 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein, bs21m (28 kDa, Protein from Toxoplasma gondii)
- Chch domain-containing protein (16 kDa, Protein from Toxoplasma gondii)
- Unidentified peptide (1 kDa, Protein from Toxoplasma gondii)
- Unidentified peptide (1 kDa, Protein from Toxoplasma gondii)
- Acylphosphatase-like domain-containing protein (27 kDa, Protein from Toxoplasma gondii)
- Ulr12 (1 kDa, RNA from Toxoplasma gondii)
- Rna19 (10 kDa, RNA from Toxoplasma gondii)
- Ulr17 (4 kDa, RNA from Toxoplasma gondii)
- Ssua (36 kDa, RNA from Toxoplasma gondii)
- Ulr15 (873 Da, RNA from Toxoplasma gondii)
- 30s ribosomal protein s5, putative (127 kDa, Protein from Toxoplasma gondii)
- Ulr16 (4 kDa, RNA from Toxoplasma gondii)
- Putative ribosomal protein s8 (14 kDa, Protein from Toxoplasma gondii)
- Macro domain-containing protein (75 kDa, Protein from Toxoplasma gondii)
- Ribosomal protein, us2m (18 kDa, Protein from Toxoplasma gondii)
- 30s ribosomal protein s12, putative (66 kDa, Protein from Toxoplasma gondii)
- Ulr11 (2 kDa, RNA from Toxoplasma gondii)
- Url18 (9 kDa, RNA from Toxoplasma gondii)
- Ulr20 (1 kDa, RNA from Toxoplasma gondii)
- Putative ribosomal protein s17 (14 kDa, Protein from Toxoplasma gondii)
- Lsu structure derived from the lsu sample of the mitoribosome from t. gondii. (4 MDa, Complex from Toxoplasma gondii)
- Unidentified peptide (1 kDa, Protein from Toxoplasma gondii)
- Mitochondrial ribosomal protein, ms147 (34 kDa, Protein from Toxoplasma gondii)
- Enoyl-coa hydratase/isomerase family protein (80 kDa, Protein from Toxoplasma gondii)