Human DNA polymerase theta helicase domain in complex with inhibitor AB25583, dimer form
Ito F, Li Z, Minakhin L, Chandramouly G, Tyagi M, Betsch R, Krais JJ, Taberi B, Vekariya U, Calbert M, Skorski T, Johnson N, Chen XS, Pomerantz RT
Nat Commun (2024) 15 pp. 7003-7003 [ DOI: doi:10.1038/s41467-024-51351-4 Pubmed: 39143110 ]
Human DNA polymerase theta helicase domain in complex with inhibitor AB25583, tetramer form
Ito F, Li Z, Minakhin L, Chandramouly G, Tyagi M, Betsch R, Krais JJ, Taberi B, Vekariya U, Calbert M, Skorski T, Johnson N, Chen XS, Pomerantz RT
Nat Commun (2024) 15 pp. 7003-7003 [ DOI: doi:10.1038/s41467-024-51351-4 Pubmed: 39143110 ]
Resolution: 2.33 Å
EM Method: Single-particle
Fitted PDBs: 8ud2
Q-score: 0.672
SARS-CoV-2 Nsp15 bound to poly(A/U) RNA, consensus form
Resolution: 2.67 Å
EM Method: Single-particle
Fitted PDBs: 8ud3
Q-score: 0.605
Ito F, Yang H, Zhou ZH, Chen XS
Protein Cell (2024) 15 pp. 547-552 [ Pubmed: 38613382 DOI: doi:10.1093/procel/pwae009 ]
- Rna (35-mer) (11 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
- Homohexamer of nsp15 in complex with poly(a/u) rna (262 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Rna (35-mer) (10 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
- Non-structural protein 15 (40 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 Nsp15 bound to poly(A/U) RNA, state 1
Resolution: 3.25 Å
EM Method: Single-particle
Fitted PDBs: 8ud4
Q-score: 0.511
Ito F, Yang H, Zhou ZH, Chen XS
Protein Cell (2024) 15 pp. 547-552 [ Pubmed: 38613382 DOI: doi:10.1093/procel/pwae009 ]
- Rna (35-mer) (11 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
- Homohexamer of nsp15 in complex with rna duplex (262 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Rna (35-mer) (10 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
- Non-structural protein 15 (40 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 Nsp15 bound to poly(A/U) RNA, state 2
Resolution: 3.13 Å
EM Method: Single-particle
Fitted PDBs: 8ud5
Q-score: 0.541
Ito F, Yang H, Zhou ZH, Chen XS
Protein Cell (2024) 15 pp. 547-552 [ Pubmed: 38613382 DOI: doi:10.1093/procel/pwae009 ]
- Rna (35-mer) (11 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
- Homohexamer of nsp15 in complex with rna duplex (262 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Rna (35-mer) (10 kDa, RNA from Severe acute respiratory syndrome coronavirus 2)
- Non-structural protein 15 (40 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Human APOBEC3H bound to HIV-1 Vif in complex with CBF-beta, ELOB, ELOC, and CUL5
Resolution: 3.24 Å
EM Method: Single-particle
Fitted PDBs: 8fvi
Q-score: 0.431
Ito F, Alvarez-Cabrera AL, Kim K, Zhou ZH, Chen XS
Nat Commun (2023) 14 pp. 5241-5241 [ DOI: doi:10.1038/s41467-023-40955-x Pubmed: 37640699 ]
- Dna dc->du-editing enzyme apobec-3h (22 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Virion infectivity factor (21 kDa, Protein from Human immunodeficiency virus 1)
- Elongin-b (11 kDa, Protein from Homo sapiens)
- Hetero-hexameric complex of hiv-1 vif and human apobec3h, cbf-beta, elob, eloc, and cul5 (120 kDa, Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Elongin-c (10 kDa, Protein from Homo sapiens)
- Rna(5'-r(ap*up*up*up*up*up*up*up*up*u)-3') (3 kDa, RNA from Escherichia coli)
- Rna(5'-r(*ap*ap*ap*ap*ap*ap*ap*ap*a)-3') (2 kDa, RNA from Escherichia coli)
- Core-binding factor subunit beta (18 kDa, Protein from Homo sapiens)
- Cullin 5 (36 kDa, Protein from Homo sapiens)
Dimeric form of HIV-1 Vif in complex with human CBF-beta, ELOB, ELOC, and CUL5
Resolution: 3.54 Å
EM Method: Single-particle
Fitted PDBs: 8fvj
Q-score: 0.374
Ito F, Alvarez-Cabrera AL, Kim K, Zhou ZH, Chen XS
Nat Commun (2023) 14 pp. 5241-5241 [ DOI: doi:10.1038/s41467-023-40955-x Pubmed: 37640699 ]
- Dimeric form of hiv-1 vif in complex with human cbf-beta, elob, eloc, and cul5 (198 kDa, Complex from Homo sapiens)
- Virion infectivity factor (21 kDa, Protein from Human immunodeficiency virus 1)
- Elongin-b (11 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Elongin-c (10 kDa, Protein from Homo sapiens)
- Cullin-5 (36 kDa, Protein from Homo sapiens)
- Core-binding factor subunit beta (18 kDa, Protein from Homo sapiens)
HIV-1 Vif in complex with human APOBEC3H, CBF-beta, ELOB, ELOC, CUL5, and RBX2
Ito F, Alvarez-Cabrera AL, Kim K, Zhou ZH, Chen XS
Nat Commun (2023) 14 pp. 5241-5241 [ DOI: doi:10.1038/s41467-023-40955-x Pubmed: 37640699 ]
- Elongin-c (Protein from Homo sapiens)
- Cullin-5 (Protein from Homo sapiens)
- Dna dc->du-editing enzyme apobec-3h (Protein from Homo sapiens)
- Virion infectivity factor (Protein from Human immunodeficiency virus 1)
- Ring-box protein 2 (Protein from Homo sapiens)
- Core-binding factor subunit beta (Protein from Homo sapiens)
- Hetero-heptameric complex of hiv-1 vif and human apobec3h, cbf-beta, elob, eloc, cul5, and rbx2 (Complex from Homo sapiens)
- Elongin-b (Protein from Homo sapiens)
Full-length APOBEC3G in complex with HIV-1 Vif, CBF-beta, and fork RNA
Resolution: 3.57 Å
EM Method: Single-particle
Fitted PDBs: 8e40
Q-score: 0.343
Ito F, Alvarez-Cabrera AL, Liu S, Yang H, Shiriaeva A, Zhou ZH, Chen XS
Sci Adv (2023) 9 pp. eade3168-eade3168 [ Pubmed: 36598981 DOI: doi:10.1126/sciadv.ade3168 ]
- Virion infectivity factor (21 kDa, Protein from Human immunodeficiency virus 1)
- Rna (8 kDa, RNA from Escherichia coli)
- Dna dc->du-editing enzyme apobec-3g (45 kDa, Protein from Macaca mulatta)
- Zinc ion (65 Da, Ligand)
- Complex of apobec3g with hiv-1 vif and cbf-beta bound to fork rna (99 kDa, Complex from Human immunodeficiency virus 1)
- Rna (6 kDa, RNA from Escherichia coli)
- Core-binding factor subunit beta (18 kDa, Protein from Homo sapiens)