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 [ Pubmed: 39167653 DOI: doi:10.1126/sciadv.adl1150 ]
- Dna (5'-d(p*cp*cp*cp*cp*c)-3') (1 kDa, DNA from Spodoptera frugiperda)
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Mpox helicase (Complex from Monkeypox virus)
- Uncoating factor opg117 (90 kDa, Protein 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 [ Pubmed: 39167653 DOI: doi:10.1126/sciadv.adl1150 ]
- Magnesium ion (24 Da, Ligand)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna (5'-d(p*cp*cp*c)-3') (822 Da, DNA from Spodoptera frugiperda)
- Mpox helicase (Complex from Monkeypox virus)
- Uncoating factor opg117 (90 kDa, Protein from Monkeypox virus)
MPOX E5 double hexamer ssDNA bound conformation
Resolution: 3.22 Å
EM Method: Single-particle
Fitted PDBs: 8wgz
Q-score: 0.273
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 ]
- Dna (5'-d(p*cp*cp*cp*cp*c)-3') (1 kDa, DNA from Spodoptera frugiperda)
- Mpox helicase (Complex from Monkeypox virus)
- Uncoating factor opg117 (90 kDa, Protein from Monkeypox virus)
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 [ Pubmed: 39167653 DOI: doi:10.1126/sciadv.adl1150 ]
- Dna (5'-d(p*cp*cp*cp*cp*c)-3') (1 kDa, DNA from Spodoptera frugiperda)
- Magnesium ion (24 Da, Ligand)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Mpox helicase (Complex from Monkeypox virus)
- Uncoating factor opg117 (90 kDa, Protein from Monkeypox virus)
MPOX E5 hexamer ssDNA bound apo conformation
Resolution: 3.03 Å
EM Method: Single-particle
Fitted PDBs: 8wh4
Q-score: 0.404
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 ]
- Mpox helicase (Complex from Monkeypox virus)
- Uncoating factor opg117 (90 kDa, Protein from Monkeypox virus)
- Dna (5'-d(p*cp*cp*cp*c)-3') (1 kDa, DNA from Spodoptera frugiperda)
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 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna (5'-d(p*cp*cp*c)-3') (822 Da, DNA from Spodoptera frugiperda)
- Mpox helicase (Complex from Monkeypox virus)
- Uncoating factor opg117 (90 kDa, Protein from Monkeypox virus)
F8-A22-E4 complex of MPXV in complex with DNA and Ara-CTP
Resolution: 3.06 Å
EM Method: Single-particle
Fitted PDBs: 8k8s
Q-score: 0.402
Structure (2024) 32 pp. 654-661.e3 [ DOI: doi:10.1016/j.str.2024.03.004 Pubmed: 38579705 ]
- Dna (5'-d(p*tp*ap*gp*gp*tp*ap*gp*gp*gp*gp*ap*gp*gp*ap*t)-3') (5 kDa, DNA from DNA molecule)
- Uracil-dna glycosylase e4 (25 kDa, Protein from Monkeypox virus)
- Magnesium ion (24 Da, Ligand)
- Dna (5'-d(*ap*tp*cp*cp*tp*cp*cp*cp*cp*tp*ap*c)-3') (3 kDa, DNA from DNA molecule)
- Water (18 Da, Ligand)
- Dna polymerase f8 (117 kDa, Protein from Monkeypox virus)
- 4-amino-1-{5-o-[(s)-hydroxy{[(r)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-beta-d-arabinofuranosyl}pyrimidin-2(1h)-one (483 Da, Ligand)
- Dna polymerase processivity factor component a20 (49 kDa, Protein from Monkeypox virus)
- F8-a22-e4 complex of mpxv in complex with dna and ara-ctp (Complex from Monkeypox virus)
F8-A22-E4 complex of MPXV in complex with DNA and dCTP
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 8k8u
Q-score: 0.347
Structure (2024) 32 pp. 654-661.e3 [ DOI: doi:10.1016/j.str.2024.03.004 Pubmed: 38579705 ]
- Uracil-dna glycosylase e4 (25 kDa, Protein from Monkeypox virus)
- Magnesium ion (24 Da, Ligand)
- Dna (5'-d(*ap*tp*cp*cp*tp*cp*cp*cp*cp*tp*ap*c)-3') (3 kDa, DNA from DNA molecule)
- Water (18 Da, Ligand)
- Dna polymerase f8 (117 kDa, Protein from Monkeypox virus)
- Dna (5'-d(p*ap*ap*gp*gp*tp*ap*gp*gp*gp*gp*ap*gp*gp*ap*t)-3') (5 kDa, DNA from DNA molecule)
- Dna polymerase processivity factor component a20 (49 kDa, Protein from Monkeypox virus)
- Cytidine-5'-triphosphate (483 Da, Ligand)
- F8-a22-e4 complex of mpxv in complex with dna and ara-ctp (Complex from Monkeypox virus)
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 polymerase (120 kDa, Protein from Monkeypox virus)
- 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)
- 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)
- 2'-deoxycytidine-5'-triphosphate (467 Da, Ligand)
- 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)
- Dna polymerase processivity factor component a20 (49 kDa, Protein from Monkeypox virus)
- Calcium ion (40 Da, Ligand)
Resolution: 2.79 Å
EM Method: Single-particle
Fitted PDBs: 8j8g
Q-score: 0.471
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 polymerase (120 kDa, Protein from Monkeypox virus)
- 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)
- E4r (27 kDa, Protein from Monkeypox virus)
- Monkeypox virus replication holoenzyme f8-a22-e4 in complex with dna duplex and cidofovir diphosphate (191 MDa, Complex from Monkeypox virus)
- [(2s)-1-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-3-oxidanyl-propan-2-yl]oxymethyl-[oxidanyl(phosphonooxy)phosphoryl]oxy-phosphinic acid (439 Da, Ligand)
- 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)
- Dna polymerase processivity factor component a20 (49 kDa, Protein from Monkeypox virus)
- Calcium ion (40 Da, Ligand)