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Structure of RNA-dependent RNA polymerase 2 (RDR2) from Arabidopsis thaliana
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7roz
Q-score: 0.427
Fukudome A, Singh J, Mishra V, Reddem E, Martinez-Marquez F, Wenzel S, Yan R, Shiozaki M, Yu Z, Wang JC, Takagi Y, Pikaard CS
PNAS (2021) 118 [ Pubmed: 34903670 DOI: doi:10.1073/pnas.2115899118 ]
- Magnesium ion (24 Da, Ligand)
- Rna-dependent rna polymerase 2 (rdr2) (129 kDa, Complex from Arabidopsis thaliana)
- Rna-dependent rna polymerase 2 (133 kDa, Protein from Arabidopsis thaliana)
Arabidopsis RNA-dependent RNA polymerase 2
Resolution: 3.57 Å
EM Method: Single-particle
Fitted PDBs: 7rqs
Q-score: 0.341
Fukudome A, Singh J, Mishra V, Reddem E, Martinez-Marquez F, Wenzel S, Yan R, Shiozaki M, Yu Z, Wang JC, Takagi Y, Pikaard CS
PNAS (2021) 118 [ Pubmed: 34903670 DOI: doi:10.1073/pnas.2115899118 ]
- Magnesium ion (24 Da, Ligand)
- Rna-dependent rna polymerase 2 (129 kDa, Complex from Arabidopsis thaliana)
- Rna-dependent rna polymerase 2 (133 kDa, Protein from Arabidopsis thaliana)
Structure of human GABA(B) receptor in an inactive state
Park J, Fu Z, Frangaj A, Liu J, Mosyak L, Shen T, Slavkovich VN, Ray KM, Taura J, Cao B, Geng Y, Zuo H, Kou Y, Grassucci R, Chen S, Liu Z, Lin X, Williams JP, Rice WJ, Eng ET, Huang RK, Soni RK, Kloss B, Yu Z, Javitch JA, Hendrickson WA, Slesinger PA, Quick M, Graziano J, Yu H, Fiehn O, Clarke OB, Frank J, Fan QR
Nature (2020) 584 pp. 304-309 [ Pubmed: 32581365 DOI: 10.1038/s41586-020-2452-0 ]
Image sets:
Human N-type voltage gated calcium channel CaV2.2-alpha2/delta1-beta1 complex, apo state
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7vfs
Q-score: 0.533
Dong Y, Gao Y, Xu S, Wang Y, Yu Z, Li Y, Li B, Yuan T, Yang B, Zhang XC, Jiang D, Huang Z, Zhao Y
Cell Rep (2021) 37 pp. 109931-109931 [ DOI: doi:10.1016/j.celrep.2021.109931 Pubmed: 34731621 ]
- Hexadecane (226 Da, Ligand)
- [(2r)-1-octadecanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8z)-icosa-5,8,11,14-tetraenoate (1 kDa, Ligand)
- Calcium ion (40 Da, Ligand)
- Voltage-dependent calcium channel subunit alpha-2/delta-1 (124 kDa, Protein from Homo sapiens)
- Voltage-dependent l-type calcium channel subunit beta-1 (65 kDa, Protein from Homo sapiens)
- Cav2.2-alpha2delta1-beta1 complex (Complex from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Voltage-dependent n-type calcium channel subunit alpha-1b (262 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Human N-type voltage gated calcium channel CaV2.2-alpha2/delta1-beta1 complex, bound to ziconotide
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7vfu
Q-score: 0.474
Dong Y, Gao Y, Xu S, Wang Y, Yu Z, Li Y, Li B, Yuan T, Yang B, Zhang XC, Jiang D, Huang Z, Zhao Y
Cell Rep (2021) 37 pp. 109931-109931 [ DOI: doi:10.1016/j.celrep.2021.109931 Pubmed: 34731621 ]
- Hexadecane (226 Da, Ligand)
- Omega-conotoxin mviia (2 kDa, Protein from Conus magus)
- [(2r)-1-octadecanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8z)-icosa-5,8,11,14-tetraenoate (1 kDa, Ligand)
- Calcium ion (40 Da, Ligand)
- Voltage-dependent calcium channel subunit alpha-2/delta-1 (124 kDa, Protein from Homo sapiens)
- Voltage-dependent l-type calcium channel subunit beta-1 (65 kDa, Protein from Homo sapiens)
- Cav2.2-alpha2delta1-beta1 complex (Complex from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Voltage-dependent n-type calcium channel subunit alpha-1b (262 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Human N-type voltage gated calcium channel CaV2.2-alpha2/delta1-beta1 complex, bound to PD173212
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7vfv
Q-score: 0.49
Dong Y, Gao Y, Xu S, Wang Y, Yu Z, Li Y, Li B, Yuan T, Yang B, Zhang XC, Jiang D, Huang Z, Zhao Y
Cell Rep (2021) 37 pp. 109931-109931 [ DOI: doi:10.1016/j.celrep.2021.109931 Pubmed: 34731621 ]
- Hexadecane (226 Da, Ligand)
- [(2r)-1-octadecanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8z)-icosa-5,8,11,14-tetraenoate (1 kDa, Ligand)
- Calcium ion (40 Da, Ligand)
- Voltage-dependent calcium channel subunit alpha-2/delta-1 (124 kDa, Protein from Homo sapiens)
- Voltage-dependent l-type calcium channel subunit beta-1 (65 kDa, Protein from Homo sapiens)
- Cav2.2-alpha2delta1-beta1 complex (Complex from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Voltage-dependent n-type calcium channel subunit alpha-1b (262 kDa, Protein from Homo sapiens)
- (2~{s})-~{n}-[(2~{s})-1-(~{tert}-butylamino)-1-oxidanylidene-3-(4-phenylmethoxyphenyl)propan-2-yl]-2-[(4-~{tert}-butylphenyl)methyl-methyl-amino]-4-methyl-pentanamide (599 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7vfw
Q-score: 0.407
Dong Y, Gao Y, Xu S, Wang Y, Yu Z, Li Y, Li B, Yuan T, Yang B, Zhang XC, Jiang D, Huang Z, Zhao Y
Cell Rep (2021) 37 pp. 109931-109931 [ DOI: doi:10.1016/j.celrep.2021.109931 Pubmed: 34731621 ]
- Hexadecane (226 Da, Ligand)
- [(2r)-1-octadecanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8z)-icosa-5,8,11,14-tetraenoate (1 kDa, Ligand)
- 5-(4-chlorophenyl)-1-(2-methoxyphenyl)-3-(2,2,6,6-tetramethyloxan-4-yl)pyrazole (424 Da, Ligand)
- Voltage-dependent calcium channel subunit alpha-2/delta-1 (124 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- Voltage-dependent l-type calcium channel subunit beta-1 (65 kDa, Protein from Homo sapiens)
- Cav2.2-alpha2delta1-beta1 complex (Complex from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Voltage-dependent n-type calcium channel subunit alpha-1b (262 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
human Pol III elongation complex
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7fji
Q-score: 0.373
Hou H, Li Y, Wang M, Liu A, Yu Z, Chen K, Zhao D, Xu Y
Nat Commun (2021) 12 pp. 6135-6135 [ DOI: doi:10.1038/s41467-021-26402-9 Pubmed: 34675218 ]
- Template (16 kDa, DNA from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac1 (39 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc2 (127 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc4 (44 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc7 (25 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc9 (16 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc5 (80 kDa, Protein from Homo sapiens)
- Rna (5'-r(*cp*cp*gp*gp*gp*up*gp*cp*up*g)-3') (3 kDa, RNA from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac2 (15 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc3 (60 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc10 (12 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- Human rna polymerase iii elongation complex (700 kDa, Complex)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc8 (22 kDa, Protein from Homo sapiens)
- Non_template dna (16 kDa, DNA from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc1 (155 kDa, Protein from Homo sapiens)
- Rna and dna (Complex)
- Human rna polymerase iii elongation (Complex from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc6 (35 kDa, Protein from Homo sapiens)
human Pol III pre-termination complex
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7fjj
Q-score: 0.364
Hou H, Li Y, Wang M, Liu A, Yu Z, Chen K, Zhao D, Xu Y
Nat Commun (2021) 12 pp. 6135-6135 [ DOI: doi:10.1038/s41467-021-26402-9 Pubmed: 34675218 ]
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac1 (39 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc2 (127 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc4 (44 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc7 (25 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc9 (16 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc5 (80 kDa, Protein from Homo sapiens)
- Non-template dna (16 kDa, DNA from Homo sapiens)
- Rna (5'-r(*cp*cp*gp*gp*gp*up*gp*cp*up*g)-3') (3 kDa, RNA from Homo sapiens)
- Dna-directed rna polymerases i and iii subunit rpac2 (15 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc3 (60 kDa, Protein from Homo sapiens)
- Template dna (16 kDa, DNA from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc10 (12 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- Human rna polymerase iii elongation complex (700 kDa, Complex)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc8 (22 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc1 (155 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Rna and dna (Complex)
- Human rna polymerase iii elongation (Complex from Homo sapiens)
- Dna-directed rna polymerase iii subunit rpc6 (35 kDa, Protein from Homo sapiens)
CryoEM structure of Escherichia coli PBP1b
Resolution: 3.28 Å
EM Method: Single-particle
Fitted PDBs: 7lq6
Q-score: 0.509
Caveney NA, Workman SD, Yan R, Atkinson CE, Yu Z, Strynadka NCJ
Nat Commun (2021) 12 pp. 2775-2775 [ Pubmed: 33986273 DOI: doi:10.1038/s41467-021-23063-6 ]
- Penicillin-binding protein 1b (83 kDa, Protein from Escherichia coli (strain K12))
- Escherichia coli pbp1b in sma (83 kDa, Complex from Escherichia coli)