MPOX E5 hexamer 2ATP, 2ADP, and ssDNA binding comformation
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8wh2
Q-score: 0.516
Xu Y, Wu Y, Zhang Y, Gao K, Wu X, Yang Y, Li D, Yang B, Zhang Z, Dong C
Sci Adv (2024) 10 pp. eadl1150-eadl1150 [ DOI: doi:10.1126/sciadv.adl1150 Pubmed: 39167653 ]
- Uncoating factor opg117 (90 kDa, Protein from Monkeypox virus)
- Magnesium ion (24 Da, Ligand)
- Dna (5'-d(p*cp*cp*cp*cp*c)-3') (1 kDa, DNA from Spodoptera frugiperda)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Mpox helicase (Complex from Monkeypox virus)
MPOX E5 hexamer AMP-PNP and ssDNA bound form with clear primase domain
Resolution: 2.91 Å
EM Method: Single-particle
Fitted PDBs: 8wgy
Q-score: 0.494
Xu Y, Wu Y, Zhang Y, Gao K, Wu X, Yang Y, Li D, Yang B, Zhang Z, Dong C
Sci Adv (2024) 10 pp. eadl1150-eadl1150 [ DOI: doi:10.1126/sciadv.adl1150 Pubmed: 39167653 ]
- Uncoating factor opg117 (90 kDa, Protein from Monkeypox virus)
- Magnesium ion (24 Da, Ligand)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Mpox helicase (Complex from Monkeypox virus)
- Dna (5'-d(p*cp*cp*c)-3') (822 Da, DNA from Spodoptera frugiperda)
MPOX E5 hexamer ssDNA and AMP-PNP bound conformation
Resolution: 2.51 Å
EM Method: Single-particle
Fitted PDBs: 8wh0
Q-score: 0.589
Xu Y, Wu Y, Zhang Y, Gao K, Wu X, Yang Y, Li D, Yang B, Zhang Z, Dong C
Sci Adv (2024) 10 pp. eadl1150-eadl1150 [ DOI: doi:10.1126/sciadv.adl1150 Pubmed: 39167653 ]
- Uncoating factor opg117 (90 kDa, Protein from Monkeypox virus)
- Magnesium ion (24 Da, Ligand)
- Dna (5'-d(p*cp*cp*cp*cp*c)-3') (1 kDa, DNA from Spodoptera frugiperda)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Mpox helicase (Complex from Monkeypox virus)
MPOX E5 hexamer ADP and ssDNA bound and clear primase domain conformation
Resolution: 3.27 Å
EM Method: Single-particle
Fitted PDBs: 8wh6
Q-score: 0.462
Xu Y, Wu Y, Zhang Y, Gao K, Wu X, Yang Y, Li D, Yang B, Zhang Z, Dong C
Sci Adv (2024) 10 pp. eadl1150-eadl1150 [ Pubmed: 39167653 DOI: doi:10.1126/sciadv.adl1150 ]
- Zinc ion (65 Da, Ligand)
- Mpox helicase (Complex from Monkeypox virus)
- Dna (5'-d(p*cp*cp*c)-3') (822 Da, DNA from Spodoptera frugiperda)
- Uncoating factor opg117 (90 kDa, Protein from Monkeypox virus)
- Adenosine-5'-diphosphate (427 Da, Ligand)
Monkeypox virus DNA replication holoenzyme F8, A22 and E4 in complex with a DNA duplex and dCTP
Resolution: 2.98 Å
EM Method: Single-particle
Fitted PDBs: 8j8f
Q-score: 0.45
Xu Y, Wu Y, Wu X, Zhang Y, Yang Y, Li D, Yang B, Gao K, Zhang Z, Dong C
Int J Biol Macromol (2024) 270 pp. 132231-132231 [ DOI: doi:10.1016/j.ijbiomac.2024.132231 Pubmed: 38735603 ]
- Dna (5'-d(p*gp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*tp*gp*ap*tp*ap*ap*cp*tp*tp*ap*ap*tp*cp*tp*cp*ap*cp*ap*tp*ap*gp*cp*ap*gp*cp*t)-3') (11 kDa, DNA from DNA molecule)
- Dna (5'-d(p*ap*gp*cp*tp*gp*cp*tp*ap*tp*gp*ap*gp*ap*tp*tp*ap*ap*gp*tp*tp*ap*t)-3') (7 kDa, DNA from DNA molecule)
- Monkeypox virus replication holoenzyme f8-a22-e4 in complex with a dna duplex and dctp (191 MDa, Complex from Monkeypox virus)
- E4r (27 kDa, Protein from Monkeypox virus)
- Dna polymerase processivity factor component a20 (49 kDa, Protein from Monkeypox virus)
- 2'-deoxycytidine-5'-triphosphate (467 Da, Ligand)
- Dna polymerase (120 kDa, Protein from Monkeypox virus)
- Calcium ion (40 Da, Ligand)
Resolution: 3.35 Å
EM Method: Single-particle
Fitted PDBs: 7wm0
Q-score: 0.295
Wang X, Chen X, Tan J, Yue S, Zhou R, Xu Y, Lin Y, Yang Y, Zhou Y, Deng K, Chen Z, Ye L, Zhu Y
Cell Host Microbe (2022) 30 pp. 887- [ DOI: doi:10.1016/j.chom.2022.03.035 ]
- Heavy chain of 35b5 fab (23 kDa, Protein from Homo sapiens)
- Sars-cov-2 spike glycoprotein (Complex from Homo sapiens)
- Light chain of 35b5 fab (25 kDa, Protein from Homo sapiens)
- Complex of sars-cov-2 spike glycoprotein and 35b5 fab (state2) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 35b5 fab (Complex)
Cryo-EM structure of the Omicron S in complex with 35B5 Fab(1 down- and 2 up RBDs)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7wly
Q-score: 0.36
Wang X, Chen X, Tan J, Yue S, Zhou R, Xu Y, Lin Y, Yang Y, Zhou Y, Deng K, Chen Z, Ye L, Zhu Y
Cell Host Microbe (2022) 30 pp. 887- [ DOI: doi:10.1016/j.chom.2022.03.035 Pubmed: 35436443 ]
- Sars-cov-2 spike glycoprotein (Complex from Homo sapiens)
- Heavy chain of 35b5 fab (25 kDa, Protein from Homo sapiens)
- Complex of sars-cov-2 spike glycoprotein and 35b5 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 35b5 fab (Complex)
- Light chain of 35b5 fab (23 kDa, Protein from Homo sapiens)
Cryo-EM structure of the Omicron S in complex with 35B5 Fab(1 down-, 1 up- and 1 invisible RBDs)
Resolution: 2.98 Å
EM Method: Single-particle
Fitted PDBs: 7wlz
Q-score: 0.395
Wang X, Chen X, Tan J, Yue S, Zhou R, Xu Y, Lin Y, Yang Y, Zhou Y, Deng K, Chen Z, Ye L, Zhu Y
Cell Host Microbe (2022) 30 pp. 887- [ DOI: doi:10.1016/j.chom.2022.03.035 Pubmed: 35436443 ]
- Sars-cov-2 spike glycoprotein (Complex from Homo sapiens)
- Heavy chain of 35b5 fab (25 kDa, Protein from Homo sapiens)
- Complex of sars-cov-2 spike glycoprotein and 35b5 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 35b5 fab (Complex)
- Light chain of 35b5 fab (23 kDa, Protein from Homo sapiens)