6TZO
| Crystal Structure of Fungal RNA Kinase | Descriptor: | 2'-DEOXYGUANOSINE-5'-DIPHOSPHATE, PHOSPHATE ION, tRNA ligase | Authors: | Shuman, S, Goldgur, Y, Banerjee, A. | Deposit date: | 2019-08-12 | Release date: | 2019-11-06 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (1.69 Å) | Cite: | Atomic structures of the RNA end-healing 5'-OH kinase and 2',3'-cyclic phosphodiesterase domains of fungal tRNA ligase: conformational switches in the kinase upon binding of the GTP phosphate donor. Nucleic Acids Res., 47, 2019
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6TZM
| Crystal Structure of Fungal RNA Kinase | Descriptor: | GUANOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, tRNA ligase | Authors: | Shuman, S, Goldgur, Y, Banerjee, A. | Deposit date: | 2019-08-12 | Release date: | 2019-11-06 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.714 Å) | Cite: | Atomic structures of the RNA end-healing 5'-OH kinase and 2',3'-cyclic phosphodiesterase domains of fungal tRNA ligase: conformational switches in the kinase upon binding of the GTP phosphate donor. Nucleic Acids Res., 47, 2019
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6U05
| Crystal Structure of Fungal RNA Kinase | Descriptor: | GUANOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, PHOSPHATE ION, ... | Authors: | Shuman, S, Goldgur, Y, Banerjee, A. | Deposit date: | 2019-08-13 | Release date: | 2019-11-06 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (1.948 Å) | Cite: | Atomic structures of the RNA end-healing 5'-OH kinase and 2',3'-cyclic phosphodiesterase domains of fungal tRNA ligase: conformational switches in the kinase upon binding of the GTP phosphate donor. Nucleic Acids Res., 47, 2019
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3KGD
| Crystal structure of E. coli RNA 3' cyclase | Descriptor: | ADENOSINE MONOPHOSPHATE, GLYCEROL, RNA 3'-terminal phosphate cyclase, ... | Authors: | Shuman, S, Tanaka, N, Smith, P. | Deposit date: | 2009-10-28 | Release date: | 2010-04-21 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (1.68 Å) | Cite: | Structure of the RNA 3'-phosphate cyclase-adenylate intermediate illuminates nucleotide specificity and covalent nucleotidyl transfer. Structure, 18, 2010
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2QY2
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2OWO
| Last Stop on the Road to Repair: Structure of E.coli DNA Ligase Bound to Nicked DNA-Adenylate | Descriptor: | 26-MER, 5'-D(*AP*CP*AP*AP*TP*TP*GP*CP*GP*AP*CP*(OMC)P*C)-3', 5'-D(*CP*AP*CP*TP*AP*TP*CP*GP*GP*AP*AP*TP*G)-3', ... | Authors: | Shuman, S, Nandakumar, J, Nair, P.A. | Deposit date: | 2007-02-16 | Release date: | 2007-05-15 | Last modified: | 2023-08-30 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Last Stop on the Road to Repair: Structure of E. coli DNA Ligase Bound to Nicked DNA-Adenylate. Mol.Cell, 26, 2007
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4MDF
| Structure of bacterial polynucleotide kinase Michaelis complex bound to GTP and DNA | Descriptor: | CITRIC ACID, DNA (5'-D(*CP*CP*TP*GP*T)-3'), GUANOSINE-5'-TRIPHOSPHATE, ... | Authors: | Shuman, S, Das, U, Wang, L.K, Smith, P, Jacewicz, A. | Deposit date: | 2013-08-22 | Release date: | 2013-11-06 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (1.727 Å) | Cite: | Structures of bacterial polynucleotide kinase in a Michaelis complex with GTP*Mg2+ and 5'-OH oligonucleotide and a product complex with GDP*Mg2+ and 5'-PO4 oligonucleotide reveal a mechanism of general acid-base catalysis and the determinants of phosphoacceptor recognition. Nucleic Acids Res., 42, 2014
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3N9D
| Monoclinic Structure of P. aeruginosa LigD phosphoesterase domain | Descriptor: | MANGANESE (II) ION, Probable ATP-dependent DNA ligase, SULFATE ION, ... | Authors: | Shuman, S, Nair, P, Smith, P. | Deposit date: | 2010-05-28 | Release date: | 2010-08-11 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Structure of bacterial LigD 3'-phosphoesterase unveils a DNA repair superfamily Proc.Natl.Acad.Sci.USA, 107, 2010
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4MDE
| Structure of bacterial polynucleotide kinase product complex bound to GDP and DNA | Descriptor: | DNA (5'-D(P*CP*CP*TP*GP*T)-3'), GUANOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, ... | Authors: | Shuman, S, Das, U, Wang, L.K, Smith, P, Jacewicz, A. | Deposit date: | 2013-08-22 | Release date: | 2013-11-06 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Structures of bacterial polynucleotide kinase in a Michaelis complex with GTP*Mg2+ and 5'-OH oligonucleotide and a product complex with GDP*Mg2+ and 5'-PO4 oligonucleotide reveal a mechanism of general acid-base catalysis and the determinants of phosphoacceptor recognition. Nucleic Acids Res., 42, 2014
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3N9B
| Crystal Structure of the P. aeruginosa LigD phosphoesterase domain | Descriptor: | CHLORIDE ION, DI(HYDROXYETHYL)ETHER, MANGANESE (II) ION, ... | Authors: | Shuman, S, Nair, P, Smith, P. | Deposit date: | 2010-05-28 | Release date: | 2010-08-11 | Last modified: | 2024-02-21 | Method: | X-RAY DIFFRACTION (1.92 Å) | Cite: | Structure of bacterial LigD 3'-phosphoesterase unveils a DNA repair superfamily Proc.Natl.Acad.Sci.USA, 107, 2010
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5TC1
| In situ structures of the genome and genome-delivery apparatus in ssRNA bacteriophage MS2 | Descriptor: | Capsid protein, Maturation protein, phage MS2 genome | Authors: | Dai, X.H, Li, Z.H, Lai, M, Shu, S, Du, Y.S, Zhou, Z.H, Sun, R. | Deposit date: | 2016-09-13 | Release date: | 2016-12-07 | Last modified: | 2018-07-18 | Method: | ELECTRON MICROSCOPY (3.6 Å) | Cite: | In situ structures of the genome and genome-delivery apparatus in a single-stranded RNA virus. Nature, 541, 2017
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4CKB
| Vaccinia virus capping enzyme complexed with GTP and SAH | Descriptor: | GUANOSINE-5'-TRIPHOSPHATE, MRNA-CAPPING ENZYME CATALYTIC SUBUNIT, MRNA-CAPPING ENZYME REGULATORY SUBUNIT, ... | Authors: | Kyrieleis, O.J.P, Chang, J, de la Pena, M, Shuman, S, Cusack, S. | Deposit date: | 2014-01-02 | Release date: | 2014-03-19 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Crystal Structure of Vaccinia Virus Mrna Capping Enzyme Provides Insights Into the Mechanism and Evolution of the Capping Apparatus. Structure, 22, 2014
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4CKE
| Vaccinia virus capping enzyme complexed with SAH in P1 form | Descriptor: | MRNA-CAPPING ENZYME CATALYTIC SUBUNIT, MRNA-CAPPING ENZYME REGULATORY SUBUNIT, S-ADENOSYL-L-HOMOCYSTEINE | Authors: | Kyrieleis, O.J.P, Chang, J, de la Pena, M, Shuman, S, Cusack, S. | Deposit date: | 2014-01-03 | Release date: | 2014-03-19 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Crystal Structure of Vaccinia Virus Mrna Capping Enzyme Provides Insights Into the Mechanism and Evolution of the Capping Apparatus. Structure, 22, 2014
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4CKC
| Vaccinia virus capping enzyme complexed with SAH (monoclinic form) | Descriptor: | MRNA-CAPPING ENZYME CATALYTIC SUBUNIT, MRNA-CAPPING ENZYME REGULATORY SUBUNIT, S-ADENOSYL-L-HOMOCYSTEINE | Authors: | Kyrieleis, O.J.P, Chang, J, de la Pena, M, Shuman, S, Cusack, S. | Deposit date: | 2014-01-02 | Release date: | 2014-03-19 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Crystal Structure of Vaccinia Virus Mrna Capping Enzyme Provides Insights Into the Mechanism and Evolution of the Capping Apparatus. Structure, 22, 2014
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9D8A
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4W7S
| Crystal structure of the yeast DEAD-box splicing factor Prp28 at 2.54 Angstroms resolution | Descriptor: | GLYCEROL, HEXAETHYLENE GLYCOL, MAGNESIUM ION, ... | Authors: | Jacewicz, A, Smith, P, Schwer, B, Shuman, S. | Deposit date: | 2014-08-22 | Release date: | 2014-10-29 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.542 Å) | Cite: | Crystal structure, mutational analysis and RNA-dependent ATPase activity of the yeast DEAD-box pre-mRNA splicing factor Prp28. Nucleic Acids Res., 42, 2014
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6PPR
| Cryo-EM structure of AdnA(D934A)-AdnB(D1014A) in complex with AMPPNP and DNA | Descriptor: | ATP-dependent DNA helicase (UvrD/REP), DNA (70-MER), IRON/SULFUR CLUSTER, ... | Authors: | Jia, N, Unciuleac, M, Shuman, S, Patel, D.J. | Deposit date: | 2019-07-08 | Release date: | 2019-11-20 | Last modified: | 2024-03-20 | Method: | ELECTRON MICROSCOPY (3.5 Å) | Cite: | Structures and single-molecule analysis of bacterial motor nuclease AdnAB illuminate the mechanism of DNA double-strand break resection. Proc.Natl.Acad.Sci.USA, 116, 2019
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6PPJ
| Cryo-EM structure of AdnA(D934A)-AdnB(D1014A) in complex with AMPPNP | Descriptor: | ATP-dependent DNA helicase (UvrD/REP), IRON/SULFUR CLUSTER, PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER, ... | Authors: | Jia, N, Unciuleac, M, Shuman, S, Patel, D.J. | Deposit date: | 2019-07-07 | Release date: | 2019-11-20 | Last modified: | 2024-03-20 | Method: | ELECTRON MICROSCOPY (3.5 Å) | Cite: | Structures and single-molecule analysis of bacterial motor nuclease AdnAB illuminate the mechanism of DNA double-strand break resection. Proc.Natl.Acad.Sci.USA, 116, 2019
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2LJ6
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6VT4
| Naegleria gruberi RNA ligase R149A mutant apo | Descriptor: | RNA Ligase | Authors: | Unciuleac, M.C, Goldgur, Y, Shuman, S. | Deposit date: | 2020-02-12 | Release date: | 2020-04-08 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (2.16 Å) | Cite: | Caveat mutator: alanine substitutions for conserved amino acids in RNA ligase elicit unexpected rearrangements of the active site for lysine adenylylation. Nucleic Acids Res., 48, 2020
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6VTE
| Naegleria gruberi RNA Ligase K170M mutant with AMP and Mn | Descriptor: | ADENOSINE MONOPHOSPHATE, MANGANESE (II) ION, RNA ligase | Authors: | Unciuleac, M.C, Goldgur, Y, Shuman, S. | Deposit date: | 2020-02-12 | Release date: | 2020-04-08 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Caveat mutator: alanine substitutions for conserved amino acids in RNA ligase elicit unexpected rearrangements of the active site for lysine adenylylation. Nucleic Acids Res., 48, 2020
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6VT8
| Naegleria gruberi RNA ligase E312A mutant with AMP and Mn | Descriptor: | ADENOSINE MONOPHOSPHATE, MANGANESE (II) ION, RNA Ligase | Authors: | Unciuleac, M.C, Goldgur, Y, Shuman, S. | Deposit date: | 2020-02-12 | Release date: | 2020-04-08 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (1.998 Å) | Cite: | Caveat mutator: alanine substitutions for conserved amino acids in RNA ligase elicit unexpected rearrangements of the active site for lysine adenylylation. Nucleic Acids Res., 48, 2020
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6VT3
| Naegleria gruberi RNA ligase K326A mutant apo | Descriptor: | RNA Ligase | Authors: | Unciuleac, M.C, Goldgur, Y, Shuman, S. | Deposit date: | 2020-02-12 | Release date: | 2020-04-08 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (1.844 Å) | Cite: | Caveat mutator: alanine substitutions for conserved amino acids in RNA ligase elicit unexpected rearrangements of the active site for lysine adenylylation. Nucleic Acids Res., 48, 2020
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6VTD
| Naegleria gruberi RNA ligase R149A mutant with ATP and Mn | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, MANGANESE (II) ION, RNA Ligase | Authors: | Unciuleac, M.C, Goldgur, Y, Shuman, S. | Deposit date: | 2020-02-12 | Release date: | 2020-04-08 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Caveat mutator: alanine substitutions for conserved amino acids in RNA ligase elicit unexpected rearrangements of the active site for lysine adenylylation. Nucleic Acids Res., 48, 2020
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6VT5
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