Complex of DDM1-nucleosome(H2A) complex with DDM1 bound to SHL2
Resolution: 3.17 Å
EM Method: Single-particle
Fitted PDBs: 8kcb
Q-score: 0.38
Zhang H, Gu Z, Zeng Y, Zhang Y
Structure (2024) [ DOI: doi:10.1016/j.str.2024.05.013 Pubmed: 38870940 ]
- Complex of ddm1-nucleosome(h2a.w) complex with ddm1 bound to shl2 (Complex from Arabidopsis thaliana)
- Dna (170-mer) (52 kDa, DNA from synthetic construct)
- Beryllium trifluoride ion (66 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Histone h3.1 (15 kDa, Protein from Arabidopsis thaliana)
- Histone h2a.6 (13 kDa, Protein from Arabidopsis thaliana)
- Histone h4 (11 kDa, Protein from Arabidopsis thaliana)
- Dna (170-mer) (52 kDa, DNA from synthetic construct)
- Atp-dependent dna helicase ddm1 (86 kDa, Protein from Arabidopsis thaliana)
- Histone h2b.10 (15 kDa, Protein from Arabidopsis thaliana)
Complex of DDM1-nucleosome(H2A.W) complex with DDM1 bound to SHL2
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8kcc
Q-score: 0.387
Zhang H, Gu Z, Zeng Y, Zhang Y
Structure (2024) [ DOI: doi:10.1016/j.str.2024.05.013 Pubmed: 38870940 ]
- Complex of ddm1-nucleosome(h2a.w) complex with ddm1 bound to shl2 (Complex from Arabidopsis thaliana)
- Dna (170-mer) (52 kDa, DNA from synthetic construct)
- Beryllium trifluoride ion (66 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Probable histone h2a.7 (15 kDa, Protein from Arabidopsis thaliana)
- Histone h3.1 (15 kDa, Protein from Arabidopsis thaliana)
- Histone h4 (11 kDa, Protein from Arabidopsis thaliana)
- Dna (170-mer) (52 kDa, DNA from synthetic construct)
- Atp-dependent dna helicase ddm1 (86 kDa, Protein from Arabidopsis thaliana)
- Histone h2b.10 (15 kDa, Protein from Arabidopsis thaliana)
GK tetramer of AtP5CS1 filament with adjacent hooks, reaction state
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8y2h
Q-score: 0.471
Guo CJ, Zhang T, Leng Q, Zhou X, Zhong J, Liu JL
Nat Plants (2024) [ DOI: doi:10.1038/s41477-024-01697-w Pubmed: 38740943 ]
- Arabidopsis thaliana p5csa incubated with all substrates. (78 MDa, Complex from Arabidopsis thaliana)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Delta-1-pyrroline-5-carboxylate synthase a (78 kDa, Protein from Arabidopsis thaliana)
Structure of the auxin exporter PIN1 in Arabidopsis thaliana in the Naproxen-bound state
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8jh5
Q-score: 0.44
To Be Published
- (2s)-2-(6-methoxynaphthalen-2-yl)propanoic acid (230 Da, Ligand)
- Nanobody (13 kDa, Protein from Escherichia coli)
- Binary complex of pin1 with nanobody (Complex from Arabidopsis thaliana)
- Auxin efflux carrier component 1 (67 kDa, Protein from Arabidopsis thaliana)
GK tetramer with adjacent hooks at reaction state
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8j0f
Q-score: 0.456
Guo CJ, Zhang T, Leng Q, Zhou X, Zhong J, Liu JL
Nat Plants (2024) [ DOI: doi:10.1038/s41477-024-01697-w Pubmed: 38740943 ]
- Delta-1-pyrroline-5-carboxylate synthase b (78 kDa, Protein from Arabidopsis thaliana)
- Gamma-glutamyl phosphate (227 Da, Ligand)
- Arabidopsis thaliana p5csb incubated with all substrates. (78 MDa, Complex from Arabidopsis thaliana)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
GK monomer complexes with glutamate and ATP
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8j0g
Q-score: 0.411
To Be Published
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Delta-1-pyrroline-5-carboxylate synthase b (78 kDa, Protein from Arabidopsis thaliana)
- Gamma-l-glutamic acid (147 Da, Ligand)
- Arabidopsis thaliana p5csb incubated with all substrates. (Complex from Arabidopsis thaliana)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8j27
Q-score: 0.4
To Be Published
GK monomer complexes with G5P and ADP
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8j28
Q-score: 0.411
To Be Published
- Arabidopsis thaliana p5csb incubated with all substrates. (Complex from Arabidopsis thaliana)
- Delta-1-pyrroline-5-carboxylate synthase b (78 kDa, Protein from Arabidopsis thaliana)
- Gamma-glutamyl phosphate (227 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
Structure of DDM1-nucleosome complex in ADP state
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8wh8
Q-score: 0.403
Liu Y, Zhang Z, Hu H, Chen W, Zhang F, Wang Q, Wang C, Yan K, Du J
Nat Plants (2024) 10 pp. 374-380 [ DOI: doi:10.1038/s41477-024-01640-z Pubmed: 38413824 ]
- Atp-dependent dna helicase ddm1 (86 kDa, Protein from Arabidopsis thaliana)
- Histone h2a.6 (13 kDa, Protein from Arabidopsis thaliana)
- Histone h2b.6 (16 kDa, Protein from Arabidopsis thaliana)
- Dna (sense strand) (45 kDa, DNA from synthetic construct)
- Dna (antisense strand) (45 kDa, DNA from synthetic construct)
- Histone h3.1 (15 kDa, Protein from Arabidopsis thaliana)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Ddm1-nucleosome complex in adp state (290 kDa, Complex from Arabidopsis thaliana)
- Histone h4 (11 kDa, Protein from Arabidopsis thaliana)
Structure of DDM1-nucleosome complex in ADP-BeFx state
Resolution: 3.31 Å
EM Method: Single-particle
Fitted PDBs: 8wh9
Q-score: 0.336
Liu Y, Zhang Z, Hu H, Chen W, Zhang F, Wang Q, Wang C, Yan K, Du J
Nat Plants (2024) 10 pp. 374-380 [ Pubmed: 38413824 DOI: doi:10.1038/s41477-024-01640-z ]
- Ddm1-nucleosome complex in adp-befx state (290 kDa, Complex from Arabidopsis thaliana)
- Histone h3.1 (15 kDa, Protein from Arabidopsis thaliana)
- Dna (antisense strand) (45 kDa, DNA from synthetic construct)
- Histone h2b.6 (16 kDa, Protein from Arabidopsis thaliana)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Histone h4 (11 kDa, Protein from Arabidopsis thaliana)
- Atp-dependent dna helicase ddm1 (86 kDa, Protein from Arabidopsis thaliana)
- Beryllium trifluoride ion (66 Da, Ligand)
- Dna (sense strand) (45 kDa, DNA from synthetic construct)
- Histone h2a.6 (13 kDa, Protein from Arabidopsis thaliana)