Electron Microscopy Data Bank

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Cryo-EM structure of a Staphylococus aureus 30S-RbfA complex

Release date: Dec. 27, 2023
Resolution: 2.89 Å
EM Method: Single-particle
Fitted PDBs: 8byv
Q-score: 0.383

Bikmullin AG, Fatkhullin B, Stetsenko A, Gabdulkhakov A, Garaeva N, Nurullina L, Klochkova E, Golubev A, Khusainov I, Trachtmann N, Blokhin D, Guskov A, Validov S, Usachev K, Yusupov M

Int J Mol Sci (2023) 24 [ Pubmed: 36768442 DOI: doi:10.3390/ijms24032118 ]

Sample:

30s ribosomal protein s20 (9 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s9 (14 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s2 (29 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s small ribosomal subunit with ribosome binding factor a (Complex)
30s ribosomal protein s16 (10 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s18 (9 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
Ribosome-binding factor a (13 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s13 (13 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
Ribosome-binding factor a (Complex from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s11 (13 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s7 (17 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s19 (10 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s10 (11 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s5 (17 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s6 (11 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s8 (14 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s17 (10 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s4 (23 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s small ribosomal subunit (Complex from Staphylococcus aureus subsp. aureus NCTC 8325)
16s ribosomal rna (500 kDa, RNA from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s14 type z (7 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s3 (24 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s12 (15 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)
30s ribosomal protein s15 (10 kDa, Protein from Staphylococcus aureus subsp. aureus NCTC 8325)

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EMD-31233

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Engineered Hepatitis B virus core antigen T=3

Release date: Sept. 1, 2021
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7eoy
Q-score: 0.432

Heo Y, Jeong H, Yoo Y, Yun JH, Ryu B, Cha YJ, Lee BR, Jeon YE, Kim J, Jeong S, Jo E, Woo JS, Lee J, Cho HS, Lee W

Int J Mol Sci (2021) 22 [ DOI: doi:10.3390/ijms22179140 Pubmed: 34502049 ]

Sample:

EMD-31234

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Engineered Hepatitis B virus core antigen T=4

Release date: Sept. 1, 2021
Resolution: 3.86 Å
EM Method: Single-particle
Fitted PDBs: 7ep6
Q-score: 0.397

Heo Y, Jeong H, Yoo Y, Yun JH, Ryu B, Cha YJ, Lee BR, Jeon YE, Kim J, Jeong S, Jo E, Woo JS, Lee J, Cho HS, Lee W

Int J Mol Sci (2021) 22 [ DOI: doi:10.3390/ijms22179140 Pubmed: 34502049 ]

Sample:

EMD-31545

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Engineered Hepatitis B virus core antigen with short linker T=4

Release date: Sept. 1, 2021
Resolution: 4.4 Å
EM Method: Single-particle
Fitted PDBs: 7fdj
Q-score: 0.312

Heo Y, Jeong H, Yoo Y, Yun JH, Ryu B, Cha YJ, Lee BR, Jeon YE, Kim J, Jeong S, Jo E, Woo JS, Lee J, Cho HS, Lee W

Int J Mol Sci (2021) 22 [ DOI: doi:10.3390/ijms22179140 Pubmed: 34502049 ]

Sample:

EMD-12856

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E. coli pre-30S delta rbfA ribosomal subunit class F

Release date: July 14, 2021
Resolution: 2.69 Å
EM Method: Single-particle
Fitted PDBs: 7oe0
Q-score: 0.389

Maksimova EM, Korepanov AP, Kravchenko OV, Baymukhametov TN, Myasnikov AG, Vassilenko KS, Afonina ZA, Stolboushkina EA

Int J Mol Sci (2021) 22 [ DOI: doi:10.3390/ijms22116140 Pubmed: 34200244 ]

Sample:

30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s6, fully modified isoform (15 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s3 (25 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s13 (12 kDa, Protein from Escherichia coli BW25113)
Water (18 Da, Ligand)
30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli BW25113)
E. coli pre-30s delta rbfa ribosomal subunit class f (Complex from Escherichia coli BW25113)
30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli BW25113)
16s rrna (499 kDa, RNA from Escherichia coli BW25113)
30s ribosomal protein s18 (8 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s7 (19 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli BW25113)

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EMD-12857

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30S ribosomal subunit from E. coli

Release date: July 14, 2021
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 7oe1
Q-score: 0.373

Maksimova EM, Korepanov AP, Kravchenko OV, Baymukhametov TN, Myasnikov AG, Vassilenko KS, Afonina ZA, Stolboushkina EA

Int J Mol Sci (2021) 22 [ DOI: doi:10.3390/ijms22116140 Pubmed: 34200244 ]

Sample:

30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s6, fully modified isoform (15 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s13 (12 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s3 (25 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal subunit from e.coli (850 kDa, Complex from Escherichia coli str. K-12 substr. MG1655)
16s rrna (499 kDa, RNA from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s7 (19 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s18 (8 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)
30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli str. K-12 substr. MG1655)

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EMD-12916

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E.coli delta rbfA pre-30S ribosomal subunit class D

Release date: July 14, 2021
Resolution: 2.76 Å
EM Method: Single-particle
Fitted PDBs: 7oi0
Q-score: 0.481

Maksimova EM, Korepanov AP, Kravchenko OV, Baymukhametov TN, Myasnikov AG, Vassilenko KS, Afonina ZA, Stolboushkina EA

Int J Mol Sci (2021) 22 [ DOI: doi:10.3390/ijms22116140 Pubmed: 34200244 ]

Sample:

30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli BW25113)
Water (18 Da, Ligand)
30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli BW25113)
E. coli pre-30s delta rbfa ribosomal subunit (850 kDa, Complex from Escherichia coli BW25113)
30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli BW25113)
16s rrna (499 kDa, RNA from Escherichia coli BW25113)
30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s18 (8 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s6, fully modified isoform (15 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli BW25113)
30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli BW25113)

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