9G7C
 
 | | Cryo-EM structure of raiA ncRNA from Clostridium reveals a new RNA 3D fold | | Descriptor: | raiA (224-MER) | | Authors: | Badepally, N.G, Moura, T.R, Purta, E, Baulin, E, Bujnicki, J.M. | | Deposit date: | 2024-07-20 | | Release date: | 2024-10-30 | | Last modified: | 2024-11-13 | | Method: | ELECTRON MICROSCOPY (3.27 Å) | | Cite: | Cryo-EM Structure of raiA ncRNA From Clostridium Reveals a New RNA 3D Fold.
J.Mol.Biol., 436, 2024
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4N49
 | | Cap-specific mRNA (nucleoside-2'-O-)-methyltransferase 1 Protein in complex with m7GpppG and SAM | | Descriptor: | 7N-METHYL-8-HYDROGUANOSINE-5'-TRIPHOSPHATE, Cap-specific mRNA (nucleoside-2'-O-)-methyltransferase 1, S-ADENOSYLMETHIONINE, ... | | Authors: | Smietanski, M, Werener, M, Purta, E, Kaminska, K.H, Stepinski, J, Darzynkiewicz, E, Nowotny, M, Bujnicki, J.M. | | Deposit date: | 2013-10-08 | | Release date: | 2014-01-22 | | Last modified: | 2023-09-20 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Structural analysis of human 2'-O-ribose methyltransferases involved in mRNA cap structure formation.
Nat Commun, 5, 2014
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3TMA
 | | Crystal structure of TrmN from Thermus thermophilus | | Descriptor: | PHOSPHATE ION, methyltransferase | | Authors: | Fislage, M, Roovers, M, Tuszynska, I, Bujnicki, J.M, Droogmans, L, Versees, W. | | Deposit date: | 2011-08-31 | | Release date: | 2012-03-14 | | Last modified: | 2023-09-13 | | Method: | X-RAY DIFFRACTION (2.05 Å) | | Cite: | Crystal structures of the tRNA:m2G6 methyltransferase Trm14/TrmN from two domains of life.
Nucleic Acids Res., 40, 2012
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4N4A
 | | Cystal structure of Cap-specific mRNA (nucleoside-2'-O-)-methyltransferase 1 | | Descriptor: | Cap-specific mRNA (nucleoside-2'-O-)-methyltransferase 1 | | Authors: | Smietanski, M, Werener, M, Purta, E, Kaminska, K.H, Stepinski, J, Darzynkiewicz, E, Nowotny, M, Bujnicki, J.M. | | Deposit date: | 2013-10-08 | | Release date: | 2014-01-22 | | Last modified: | 2024-02-28 | | Method: | X-RAY DIFFRACTION (2.35 Å) | | Cite: | Structural analysis of human 2'-O-ribose methyltransferases involved in mRNA cap structure formation.
Nat Commun, 5, 2014
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3TM4
 | | Crystal structure of Trm14 from Pyrococcus furiosus in complex with S-adenosylmethionine | | Descriptor: | S-ADENOSYLMETHIONINE, tRNA (guanine N2-)-methyltransferase Trm14 | | Authors: | Fislage, M, Roovers, M, Tuszynska, I, Bujnicki, J.M, Droogmans, L, Versees, W. | | Deposit date: | 2011-08-31 | | Release date: | 2012-03-14 | | Last modified: | 2023-09-13 | | Method: | X-RAY DIFFRACTION (1.95 Å) | | Cite: | Crystal structures of the tRNA:m2G6 methyltransferase Trm14/TrmN from two domains of life.
Nucleic Acids Res., 40, 2012
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6IA2
 | | Crystal structure of a self-complementary RNA duplex recognized by Com | | Descriptor: | CHLORIDE ION, RNA (5'-R(*AP*GP*AP*GP*AP*AP*CP*CP*CP*GP*GP*AP*GP*UP*UP*CP*CP*CP*U)-3'), SULFATE ION | | Authors: | Nowacka, M, Fernandes, H, Kiliszek, A, Bernat, A, Lach, G, Bujnicki, J.M. | | Deposit date: | 2018-11-26 | | Release date: | 2019-03-27 | | Last modified: | 2024-01-24 | | Method: | X-RAY DIFFRACTION (2.27 Å) | | Cite: | Specific interaction of zinc finger protein Com with RNA and the crystal structure of a self-complementary RNA duplex recognized by Com.
Plos One, 14, 2019
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8HD6
 | | The relaxed pre-Tet-S1 state of G264A mutated Tetrahymena group I intron with 6nt 3'/5'-exon and 2-aminopurine nucleoside | | Descriptor: | MAGNESIUM ION, SPERMIDINE, The relaxed pre-Tet-S1 state molecule of co-transcriptional folded G264A mutant Tetrahymena group I intron with 6nt 3'/5'-exon and 2-aminopurine nucleoside | | Authors: | Luo, B, Zhang, C, Ling, X, Mukherjee, S, Jia, G, Xie, J, Jia, X, Liu, L, Baulin, E.F, Luo, Y, Jiang, L, Dong, H, Wei, X, Bujnicki, J.M, Su, Z. | | Deposit date: | 2022-11-03 | | Release date: | 2023-03-29 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (3.73 Å) | | Cite: | Cryo-EM reveals dynamics of Tetrahymena group I intron self-splicing
Nat Catal, 2023
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8HD7
 | | The intermediate pre-Tet-S1 state of G264A mutated Tetrahymena group I intron with 6nt 3'/5'-exon and 2-aminopurine nucleoside | | Descriptor: | MAGNESIUM ION, SPERMIDINE, The intermediate pre-Tet-S1 state molecule of co-transcriptional folded G264A mutant Tetrahymena group I intron with 6nt 3'/5'-exon and 2-aminopurine nucleoside | | Authors: | Luo, B, Zhang, C, Ling, X, Mukherjee, S, Jia, G, Xie, J, Jia, X, Liu, L, Baulin, E.F, Luo, Y, Jiang, L, Dong, H, Wei, X, Bujnicki, J.M, Su, Z. | | Deposit date: | 2022-11-03 | | Release date: | 2023-03-29 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (3.52 Å) | | Cite: | Cryo-EM reveals dynamics of Tetrahymena group I intron self-splicing
Nat Catal, 2023
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8I7N
 | | The Tet-S1 state of G264A mutated Tetrahymena group I intron with 6nt 3'/5'-exon and 2-aminopurine nucleoside | | Descriptor: | (2R,3R,4S,5R)-2-(2-azanylpurin-9-yl)-5-(hydroxymethyl)oxolane-3,4-diol, MAGNESIUM ION, SPERMIDINE, ... | | Authors: | Luo, B, Zhang, C, Ling, X, Mukherjee, S, Jia, G, Xie, J, Jia, X, Liu, L, Baulin, E.F, Luo, Y, Jiang, L, Dong, H, Wei, X, Bujnicki, J.M, Su, Z. | | Deposit date: | 2023-02-01 | | Release date: | 2023-03-29 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (2.98 Å) | | Cite: | Cryo-EM reveals dynamics of Tetrahymena group I intron self-splicing
Nat Catal, 2023
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6QM2
 | | NlaIV restriction endonuclease | | Descriptor: | POTASSIUM ION, SODIUM ION, Type-2 restriction enzyme NlaIV | | Authors: | Czapinska, H, Siwek, W, Szczepanowski, R.H, Bujnicki, J.M, Bochtler, M, Skowronek, K. | | Deposit date: | 2019-02-01 | | Release date: | 2019-05-01 | | Last modified: | 2024-05-15 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Crystal Structure and Directed Evolution of Specificity of NlaIV Restriction Endonuclease.
J.Mol.Biol., 431, 2019
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7YR7
 | | Cryo-EM structure of Pseudomonas aeruginosa RsmZ RNA in complex with three RsmA protein dimers | | Descriptor: | RsmZ RNA (118-MER), Translational regulator CsrA | | Authors: | Jia, X, Pan, Z, Yuan, Y, Luo, B, Luo, Y, Mukherjee, S, Jia, G, Liu, L, Ling, X, Yang, X, Wu, Y, Liu, T, Miao, Z, Wei, X, Bujnicki, J.M, Zhao, K, Su, Z. | | Deposit date: | 2022-08-09 | | Release date: | 2023-05-17 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (3.8 Å) | | Cite: | Structural basis of sRNA RsmZ regulation of Pseudomonas aeruginosa virulence.
Cell Res., 33, 2023
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4OUN
 | | Crystal Structure of Mini-ribonuclease 3 from Bacillus subtilis | | Descriptor: | Mini-ribonuclease 3 | | Authors: | Chojnowski, G, Czarnecka, J, Nowak, E, Pianka, D, Glow, D, Sabala, I, Skowronek, K, Nowotny, M, Bujnicki, J.M. | | Deposit date: | 2014-02-18 | | Release date: | 2015-02-04 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Sequence-specific cleavage of dsRNA by Mini-III RNase
Nucleic Acids Res., 43, 2015
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3HJ6
 | | Structure of Halothermothrix orenii fructokinase (FRK) | | Descriptor: | Fructokinase | | Authors: | Chua, T.K, Seetharaman, J, Kasprzak, J.M, Ng, C, Patel, B.K, Love, C, Bujnicki, J.M, Sivaraman, J. | | Deposit date: | 2009-05-21 | | Release date: | 2010-06-09 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Crystal structure of a fructokinase homolog from Halothermothrix orenii
J.Struct.Biol., 171, 2010
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7XD7
 | | The pre-Tet-C state of wild-type Tetrahymena group I intron with 30nt 3'/5'-exon | | Descriptor: | MAGNESIUM ION, SPERMIDINE, The pre-Tet-C state molecule of co-transcriptional folded wild-type Tetrahymena group I intron with 30nt 3'/5'-exon | | Authors: | Luo, B, Zhang, C, Ling, X, Mukherjee, S, Jia, G, Xie, J, Jia, X, Liu, L, Baulin, E.F, Luo, Y, Jiang, L, Dong, H, Wei, X, Bujnicki, J.M, Su, Z. | | Deposit date: | 2022-03-26 | | Release date: | 2023-03-29 | | Last modified: | 2024-06-26 | | Method: | ELECTRON MICROSCOPY (3.02 Å) | | Cite: | Cryo-EM reveals dynamics of Tetrahymena group I intron self-splicing
Nat Catal, 2023
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7XD3
 | | The relaxed pre-Tet-S1 state of wild-type Tetrahymena group I intron with 6nt 3'/5'-exon | | Descriptor: | MAGNESIUM ION, The relaxed pre-Tet-S1 state molecule of co-transcriptional folded wild-type Tetrahymena group I intron with 6nt 3'/5'-exon | | Authors: | Luo, B, Zhang, C, Ling, X, Mukherjee, S, Jia, G, Xie, J, Jia, X, Liu, L, Baulin, E.F, Luo, Y, Jiang, L, Dong, H, Wei, X, Bujnicki, J.M, Su, Z. | | Deposit date: | 2022-03-26 | | Release date: | 2023-03-29 | | Last modified: | 2024-06-26 | | Method: | ELECTRON MICROSCOPY (4.05 Å) | | Cite: | Cryo-EM reveals dynamics of Tetrahymena group I intron self-splicing
Nat Catal, 2023
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7XD4
 | | The intermediate pre-Tet-S1 state of wild-type Tetrahymena group I intron with 6nt 3'/5'-exon | | Descriptor: | Co-transcriptional folded wild-type Tetrahymena group I intron with 6nt 3'/5'-exon, MAGNESIUM ION | | Authors: | Luo, B, Zhang, C, Ling, X, Mukherjee, S, Jia, G, Xie, J, Jia, X, Liu, L, Baulin, E.F, Luo, Y, Jiang, L, Dong, H, Wei, X, Bujnicki, J.M, Su, Z. | | Deposit date: | 2022-03-26 | | Release date: | 2023-03-29 | | Last modified: | 2024-06-26 | | Method: | ELECTRON MICROSCOPY (3.89 Å) | | Cite: | Cryo-EM reveals dynamics of Tetrahymena group I intron self-splicing
Nat Catal, 2023
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7XD5
 | | The Tet-S2 state of wild-type Tetrahymena group I intron with 30nt 3'/5'-exon | | Descriptor: | MAGNESIUM ION, SPERMIDINE, The Tet-S2 state molecule of co-transcriptional folded wild-type Tetrahymena group I intron with 30nt 3'/5'-exon (5'-exon), ... | | Authors: | Luo, B, Zhang, C, Ling, X, Mukherjee, S, Jia, G, Xie, J, Jia, X, Liu, L, Baulin, E.F, Luo, Y, Jiang, L, Dong, H, Wei, X, Bujnicki, J.M, Su, Z. | | Deposit date: | 2022-03-26 | | Release date: | 2023-04-05 | | Last modified: | 2024-06-26 | | Method: | ELECTRON MICROSCOPY (2.84 Å) | | Cite: | Cryo-EM reveals dynamics of Tetrahymena group I intron self-splicing
Nat Catal, 2023
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7XD6
 | | The Tet-S2 state with a pseudoknotted 4-way junction of wild-type Tetrahymena group I intron with 30nt 3'/5'-exon | | Descriptor: | MAGNESIUM ION, SPERMIDINE, The Tet-S2 state with a pseudoknotted 4-way junction molecule of co-transcriptional folded wild-type Tetrahymena group I intron with 30nt 3'/5'-exon (5'-exon), ... | | Authors: | Luo, B, Zhang, C, Ling, X, Mukherjee, S, Jia, G, Xie, J, Jia, X, Liu, L, Baulin, E.F, Luo, Y, Jiang, L, Dong, H, Wei, X, Bujnicki, J.M, Su, Z. | | Deposit date: | 2022-03-26 | | Release date: | 2023-04-05 | | Last modified: | 2024-06-26 | | Method: | ELECTRON MICROSCOPY (2.84 Å) | | Cite: | Cryo-EM reveals dynamics of Tetrahymena group I intron self-splicing
Nat Catal, 2023
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4ESJ
 | | RESTRICTION ENDONUCLEASE DpnI IN COMPLEX WITH TARGET DNA | | Descriptor: | AZIDE ION, DNA (5'-D(*CP*TP*GP*GP*(6MA)P*TP*CP*CP*AP*G)-3'), GLYCEROL, ... | | Authors: | Siwek, W, Czapinska, H, Bochtler, M, Bujnicki, J.M, Skowronek, K. | | Deposit date: | 2012-04-23 | | Release date: | 2012-06-13 | | Last modified: | 2024-02-28 | | Method: | X-RAY DIFFRACTION (2.05 Å) | | Cite: | Crystal structure and mechanism of action of the N6-methyladenine-dependent type IIM restriction endonuclease R.DpnI.
Nucleic Acids Res., 40, 2012
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2Y7H
 | | Atomic model of the DNA-bound methylase complex from the Type I restriction-modification enzyme EcoKI (M2S1). Based on fitting into EM map 1534. | | Descriptor: | 5'-D(*GP*TP*TP*CP*AP*AP*CP*GP*TP*CP*GP*AP*CP*GP *TP*GP*CP*AP*AP*C)-3', 5'-D(*GP*TP*TP*GP*CP*AP*CP*GP*TP*CP*GP*AP*CP*GP *TP*TP*GP*AP*AP*C)-3', S-ADENOSYLMETHIONINE, ... | | Authors: | Kennaway, C.K, Obarska-Kosinska, A, White, J.H, Tuszynska, I, Cooper, L.P, Bujnicki, J.M, Trinick, J, Dryden, D.T.F. | | Deposit date: | 2011-01-31 | | Release date: | 2011-02-09 | | Last modified: | 2024-05-08 | | Method: | ELECTRON MICROSCOPY (18 Å) | | Cite: | The Structure of M.Ecoki Type I DNA Methyltransferase with a DNA Mimic Antirestriction Protein.
Nucleic Acids Res., 37, 2009
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8QO4
 | | Conserved Structures and Dynamics in 5-Proximal Regions of Betacoronavirus RNA Genomes | | Descriptor: | MERS-CoV-SL5 | | Authors: | Moura, T.R, Purta, E, Bernat, A, Baulin, E, Mukherjee, S, Bujnicki, J.M. | | Deposit date: | 2023-09-28 | | Release date: | 2024-03-06 | | Last modified: | 2024-04-24 | | Method: | ELECTRON MICROSCOPY (5.9 Å) | | Cite: | Conserved structures and dynamics in 5'-proximal regions of Betacoronavirus RNA genomes.
Nucleic Acids Res., 52, 2024
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8QO2
 | | Conserved Structures and Dynamics in 5-Proximal Regions of Betacoronavirus RNA Genomes | | Descriptor: | OC43-CoV-SL5 | | Authors: | Moura, T.R, Purta, E, Bernat, A, Baulin, E, Mukherjee, S, Bujnicki, J.M. | | Deposit date: | 2023-09-27 | | Release date: | 2024-03-06 | | Last modified: | 2024-04-24 | | Method: | ELECTRON MICROSCOPY (7.1 Å) | | Cite: | Conserved structures and dynamics in 5'-proximal regions of Betacoronavirus RNA genomes.
Nucleic Acids Res., 52, 2024
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8QO3
 | | Conserved Structures and Dynamics in 5-Proximal Regions of Betacoronavirus RNA Genomes | | Descriptor: | RoBat-CoV-SL5 | | Authors: | Moura, T.R, Purta, E, Bernat, A, Baulin, E, Mukherjee, S, Bujnicki, J.M. | | Deposit date: | 2023-09-28 | | Release date: | 2024-03-06 | | Last modified: | 2024-04-24 | | Method: | ELECTRON MICROSCOPY (6.6 Å) | | Cite: | Conserved structures and dynamics in 5'-proximal regions of Betacoronavirus RNA genomes.
Nucleic Acids Res., 52, 2024
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8QO5
 | | Conserved Structures and Dynamics in 5-Proximal Regions of Betacoronavirus RNA Genomes | | Descriptor: | SARS-CoV-2-SL5 | | Authors: | Moura, T.R, Purta, E, Bernat, A, Baulin, E, Mukherjee, S, Bujnicki, J.M. | | Deposit date: | 2023-09-28 | | Release date: | 2024-03-06 | | Last modified: | 2024-04-24 | | Method: | ELECTRON MICROSCOPY (6.5 Å) | | Cite: | Conserved structures and dynamics in 5'-proximal regions of Betacoronavirus RNA genomes.
Nucleic Acids Res., 52, 2024
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4HKQ
 | | XMRV reverse transcriptase in complex with RNA/DNA hybrid | | Descriptor: | DNA (5'-D(*TP*GP*GP*AP*AP*TP*CP*A*GP*GP*TP*GP*TP*CP*GP*CP*AP*CP*TP*CP*TP*G)-3'), RNA (5'-R(*AP*AP*CP*AP*GP*AP*GP*UP*GP*CP*GP*AP*CP*AP*CP*CP*UP*GP*AP*UP*UP*CP*CP*AP*U)-3'), Reverse transcriptase/ribonuclease H p80 | | Authors: | Nowak, E, Potrzebowski, W, Konarev, P.V, Rausch, J.W, Bona, M.K, Svergun, D.I, Bujnicki, J.M, Le Grice, S.F.J, Nowotny, M. | | Deposit date: | 2012-10-15 | | Release date: | 2013-02-20 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.04 Å) | | Cite: | Structural analysis of monomeric retroviral reverse transcriptase in complex with an RNA/DNA hybrid
Nucleic Acids Res., 41, 2013
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