Structure of the human INTS9-INTS11-BRAT1 complex
Lin MH, Jensen MK, Elrod ND, Chu HF, Haseley M, Beam AC, Huang KL, Chiang W, Russell WK, Williams K, Proschel C, Wagner EJ, Tong L
Mol Cell (2024) 84 pp. 2900-2917.e10 [ DOI: doi:10.1016/j.molcel.2024.06.017 Pubmed: 39032490 ]
- Integrator complex subunit 9 (73 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Integrator complex subunit 11 (67 kDa, Protein from Homo sapiens)
- Brca1-associated atm activator 1 (88 kDa, Protein from Homo sapiens)
- Complex of brat1-ints9-ints11 (230 kDa, Complex from Homo sapiens)
Structure of the Drosophila IntS11-CG7044(dBRAT1) complex
Lin MH, Jensen MK, Elrod ND, Chu HF, Haseley M, Beam AC, Huang KL, Chiang W, Russell WK, Williams K, Proschel C, Wagner EJ, Tong L
Mol Cell (2024) 84 pp. 2900-2917.e10 [ DOI: doi:10.1016/j.molcel.2024.06.017 Pubmed: 39032490 ]
- Integrator complex subunit 11 (67 kDa, Protein from Drosophila melanogaster)
- Complex of drosophila ints11 and cg7044 (180 kDa, Complex from Drosophila melanogaster)
- Fi02071p (113 kDa, Protein from Drosophila melanogaster)
- Zinc ion (65 Da, Ligand)
Resolution: 3.32 Å
EM Method: Single-particle
Fitted PDBs: 8gk7
Q-score: 0.364
Wang H, Ishchenko A, Skudlarek J, Shen P, Dzhekieva L, Painter RE, Chen YT, Bukhtiyarova M, Leithead A, Tracy R, Babaoglu K, Bahnck-Teets C, Buevich A, Cabalu TD, Labroli M, Lange H, Lei Y, Li W, Liu J, Mann PA, Meng T, Mitchell HJ, Mulhearn J, Scapin G, Sha D, Shaw AW, Si Q, Tong L, Wu C, Wu Z, Xiao JC, Xu M, Zhang LK, McKenney D, Miller RR, Black TA, Cooke A, Balibar CJ, Klein DJ, Raheem I, Walker SS
Nat Microbiol (2024) 9 pp. 1244-1255 [ DOI: doi:10.1038/s41564-024-01667-0 Pubmed: 38649414 ]
- Msba complexed with cerastecin c (450 kDa, Complex from Acinetobacter baumannii)
- Lipid a export atp-binding/permease protein msba (66 kDa, Protein from Acinetobacter baumannii)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- 2-[(4-butylbenzene-1-sulfonyl)amino]-5-[(3-{4-[(4-butylbenzene-1-sulfonyl)amino]-3-carboxyanilino}-3-oxopropyl)carbamoyl]benzoic acid (778 Da, Ligand)
SARS-CoV-2 S ectodomain trimer in complex with neutralizing antibody 10-5B
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7xd2
Q-score: 0.367
Liu Y, Wang Z, Zhuang X, Zhang S, Chen Z, Zou Y, Sheng J, Li T, Tai W, Yu J, Wang Y, Zhang Z, Chen Y, Tong L, Yu X, Wu L, Chen D, Zhang R, Jin N, Shen W, Zhao J, Tian M, Wang X, Cheng G
Nat Commun (2023) 14 pp. 2179-2179 [ Pubmed: 37069158 DOI: doi:10.1038/s41467-023-37926-7 ]
- Spike glycoprotein (143 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- L chian of antibody 10-5b (11 kDa, Protein from Homo sapiens)
- H chain of antibody 10-5b (12 kDa, Protein from Homo sapiens)
- Spike+antibody (Complex from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 BA.1 variants S ectodomain trimer in complex with neutralizing antibody 10-5B and 6-2C
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8h08
Q-score: 0.3
Liu Y, Wang Z, Zhuang X, Zhang S, Chen Z, Zou Y, Sheng J, Li T, Tai W, Yu J, Wang Y, Zhang Z, Chen Y, Tong L, Yu X, Wu L, Chen D, Zhang R, Jin N, Shen W, Zhao J, Tian M, Wang X, Cheng G
Nat Commun (2023) 14 pp. 2179-2179 [ Pubmed: 37069158 DOI: doi:10.1038/s41467-023-37926-7 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 10-5b h chain (12 kDa, Protein from Homo sapiens)
- 10-5b l chain (11 kDa, Protein from Homo sapiens)
- Sars-cov-2 ba.1 variants spike (Cellular component from Severe acute respiratory syndrome coronavirus 2)
- 6-2c l chain (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein (144 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 6-2c h chain (13 kDa, Protein from Homo sapiens)
- Sars-cov-2 ba.1 variants spike (Complex)
- Antibody (Cellular component from Homo sapiens)
Cryo-EM structure of Lactococcus lactis pyruvate carboxylase with acetyl-CoA and cyclic di-AMP
Resolution: 3.29 Å
EM Method: Single-particle
Fitted PDBs: 7zz8
Q-score: 0.521
Lopez-Alonso JP, Lazaro M, Gil-Carton D, Choi PH, Tong L, Valle M
Nat Commun (2022) 13 pp. 6185-6185 [ Pubmed: 36261450 DOI: doi:10.1038/s41467-022-33987-2 ]
- Pyruvate carboxylase (127 kDa, Protein from Lactococcus lactis)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Pyruvic acid (88 Da, Ligand)
- (2r,3r,3as,5r,7ar,9r,10r,10as,12r,14ar)-2,9-bis(6-amino-9h-purin-9-yl)octahydro-2h,7h-difuro[3,2-d:3',2'-j][1,3,7,9,2,8 ]tetraoxadiphosphacyclododecine-3,5,10,12-tetrol 5,12-dioxide (658 Da, Ligand)
- Acetyl coenzyme *a (809 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Pyruvate carboxylase with acetyl coenzyme a and cyclic di-amp (Cellular component from Lactococcus lactis)
- Manganese (ii) ion (54 Da, Ligand)
- Water (18 Da, Ligand)
Cryo-EM structure of the SARS-CoV-2 spike glycoprotein in complex with all-trans retinoic acid
Resolution: 3.45 Å
EM Method: Single-particle
Fitted PDBs: 7y42
Q-score: 0.473
Tong L, Wang L, Liao S, Xiao X, Qu J, Wu C, Zhu Y, Tai W, Huang Y, Wang P, Li L, Zhang R, Xiang Y, Cheng G
Mbio (2022) 13 pp. e0148522-e0148522 [ Pubmed: 35862773 DOI: doi:10.1128/mbio.01485-22 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 spike glycoprotein in complex with atra (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (124 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Retinoic acid (300 Da, Ligand)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 6v4x
Q-score: 0.516
Sun Y, Zhang Y, Aik WS, Yang XC, Marzluff WF, Walz T, Dominski Z, Tong L
Science (2020) 367 pp. 700-703 [ DOI: doi:10.1126/science.aaz7758 Pubmed: 32029631 ]
- Zinc ion (65 Da, Ligand)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
- Symplekin (120 kDa, Protein from Homo sapiens)
- Modified h2a pre-mrna (16 kDa, RNA from Mus musculus)
- U7 snrna (19 kDa, RNA from Homo sapiens)
- Small nuclear ribonucleoprotein-associated proteins b and b' (10 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein g (9 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d3 (16 kDa, Protein from Homo sapiens)
- U7 snrna-associated sm-like protein lsm10 (14 kDa, Protein from Homo sapiens)
- Cleavage and polyadenylation specificity factor subunit 3 (77 kDa, Protein from Homo sapiens)
- Cleavage and polyadenylation specificity factor subunit 2 (88 kDa, Protein from Homo sapiens)
- U7 snrna-associated sm-like protein lsm11 (28 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
- The core of metazoan replication-dependent histone pre-mrna 3'-end processing machinery (Complex from Homo sapiens)
Cryo-EM structure of human CPSF160-WDR33-CPSF30-CPSF100 PIM complex
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 6urg
Q-score: 0.543
Zhang Y, Sun Y, Shi Y, Walz T, Tong L
Mol Cell (2020) 77 pp. 800- [ DOI: doi:10.1016/j.molcel.2019.11.005 Pubmed: 31810758 ]
- Zinc ion (65 Da, Ligand)
- The complex of human mpsf-cpsf100 pim (Complex from Homo sapiens)
- Cleavage and polyadenylation specificity factor subunit 4 (28 kDa, Protein from Homo sapiens)
- Pre-mrna 3' end processing protein wdr33 (67 kDa, Protein from Homo sapiens)
- Cleavage and polyadenylation specificity factor subunit 2 (88 kDa, Protein from Homo sapiens)
- Cleavage and polyadenylation specificity factor subunit 1 (161 kDa, Protein from Homo sapiens)
Cryo-EM structure of human CPSF160-WDR33-CPSF30-PAS RNA-CstF77 complex
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 6uro
Q-score: 0.348
Zhang Y, Sun Y, Shi Y, Walz T, Tong L
Mol Cell (2020) 77 pp. 800- [ DOI: doi:10.1016/j.molcel.2019.11.005 Pubmed: 31810758 ]
- Zinc ion (65 Da, Ligand)
- Cleavage stimulation factor subunit 3 (83 kDa, Protein from Homo sapiens)
- Cleavage and polyadenylation specificity factor subunit 4 (28 kDa, Protein from Homo sapiens)
- The complex of human mpsf-pas rna-cstf (Complex from Homo sapiens)
- Pre-mrna 3' end processing protein wdr33 (67 kDa, Protein from Homo sapiens)
- Pas rna (14 kDa, RNA from Macaca mulatta polyomavirus 1)
- Cleavage and polyadenylation specificity factor subunit 1 (161 kDa, Protein from Homo sapiens)