4C6A
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![BU of 4c6a by Molmil](/molmil-images/mine/4c6a) | High Resolution Structure of the Nucleoside diphosphate kinase | Descriptor: | DI(HYDROXYETHYL)ETHER, NUCLEOSIDE DIPHOSPHATE KINASE, CYTOSOLIC | Authors: | Priet, S, Ferron, F, Alvarez, K, Verron, M, Canard, B. | Deposit date: | 2013-09-18 | Release date: | 2013-11-20 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (1.25 Å) | Cite: | Enzymatic Synthesis of Acyclic Nucleoside Thiophosphonate Diphosphates: Effect of the Alpha-Phosphorus Configuration on HIV-1 RT Activity. Antiviral Res., 117, 2015
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3FKB
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![BU of 3fkb by Molmil](/molmil-images/mine/3fkb) | Structure of NDPK H122G and tenofovir-diphosphate | Descriptor: | 1,2-ETHANEDIOL, GLYCEROL, MAGNESIUM ION, ... | Authors: | Morera, S, Chen, Y.X. | Deposit date: | 2008-12-16 | Release date: | 2009-09-29 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.65 Å) | Cite: | Nucleoside diphosphate kinase and the activation of antiviral phosphonate analogs of nucleotides: binding mode and phosphorylation of tenofovir derivatives Nucleosides Nucleotides Nucleic Acids, 28, 2009
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1NPK
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![BU of 1npk by Molmil](/molmil-images/mine/1npk) | REFINED X-RAY STRUCTURE OF DICTYOSTELIUM NUCLEOSIDE DIPHOSPHATE KINASE AT 1,8 ANGSTROMS RESOLUTION | Descriptor: | NUCLEOSIDE DIPHOSPHATE KINASE | Authors: | Janin, J, Morera, S, Lebras, G, Lascu, I, Veron, M. | Deposit date: | 1994-07-27 | Release date: | 1994-11-01 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Refined X-ray structure of Dictyostelium discoideum nucleoside diphosphate kinase at 1.8 A resolution. J.Mol.Biol., 243, 1994
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1F3F
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![BU of 1f3f by Molmil](/molmil-images/mine/1f3f) | STRUCTURE OF THE H122G NUCLEOSIDE DIPHOSPHATE KINASE / D4T-TRIPHOSPHATE.MG COMPLEX | Descriptor: | 2',3'-DEHYDRO-2',3'-DEOXY-THYMIDINE 5'-DIPHOSPHATE, 2',3'-DEHYDRO-2',3'-DEOXY-THYMIDINE 5'-TRIPHOSPHATE, MAGNESIUM ION, ... | Authors: | Meyer, P, Schneider, B, Sarfati, S, Deville-Bonne, D, Guerreiro, C, Boretto, J, Janin, J, Veron, M, Canard, B. | Deposit date: | 2000-06-02 | Release date: | 2000-09-13 | Last modified: | 2024-02-07 | Method: | X-RAY DIFFRACTION (1.85 Å) | Cite: | Structural basis for activation of alpha-boranophosphate nucleotide analogues targeting drug-resistant reverse transcriptase. EMBO J., 19, 2000
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1HLW
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![BU of 1hlw by Molmil](/molmil-images/mine/1hlw) | STRUCTURE OF THE H122A MUTANT OF THE NUCLEOSIDE DIPHOSPHATE KINASE | Descriptor: | NUCLEOSIDE DIPHOSPHATE KINASE | Authors: | Admiraal, S.J, Meyer, P, Schneider, B, Deville-Bonne, D, Janin, J, Herschlag, D. | Deposit date: | 2000-12-04 | Release date: | 2001-02-28 | Last modified: | 2024-02-07 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Chemical rescue of phosphoryl transfer in a cavity mutant: a cautionary tale for site-directed mutagenesis. Biochemistry, 40, 2001
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1F6T
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![BU of 1f6t by Molmil](/molmil-images/mine/1f6t) | STRUCTURE OF THE NUCLEOSIDE DIPHOSPHATE KINASE/ALPHA-BORANO(RP)-TDP.MG COMPLEX | Descriptor: | 2*-DEOXY-THYMIDINE-5*-ALPHA BORANO DIPHOSPHATE (ISOMER RP), MAGNESIUM ION, PROTEIN (NUCLEOSIDE DIPHOSPHATE KINASE) | Authors: | Guerreiro, C, Boretto, J, Janin, J, Veron, M, Canard, B, Schneider, B, Sarfati, S, Deville-Bonne, D. | Deposit date: | 2000-06-23 | Release date: | 2000-09-13 | Last modified: | 2024-02-07 | Method: | X-RAY DIFFRACTION (1.92 Å) | Cite: | Structural basis for activation of alpha-boranophosphate nucleotide analogues targeting drug-resistant reverse transcriptase. EMBO J., 19, 2000
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1S5Z
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![BU of 1s5z by Molmil](/molmil-images/mine/1s5z) | NDP kinase in complex with adenosine phosphonoacetic acid | Descriptor: | ADENOSINE PHOSPHONOACETIC ACID, Nucleoside diphosphate kinase, cytosolic, ... | Authors: | Chen, Y, Morera, S, Pasti, C, Angusti, A, Solaroli, N, Veron, M, Janin, J, Manfredini, S, Deville-Bonne, D. | Deposit date: | 2004-01-22 | Release date: | 2005-02-01 | Last modified: | 2023-08-23 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Adenosine phosphonoacetic acid is slowly metabolized by NDP kinase. Med.Chem., 1, 2005
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1KDN
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![BU of 1kdn by Molmil](/molmil-images/mine/1kdn) | STRUCTURE OF NUCLEOSIDE DIPHOSPHATE KINASE | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, ALUMINUM FLUORIDE, MAGNESIUM ION, ... | Authors: | Cherfils, J, Xu, Y.W, Morera, S, Janin, J. | Deposit date: | 1996-09-10 | Release date: | 1997-04-21 | Last modified: | 2024-02-07 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | AlF3 mimics the transition state of protein phosphorylation in the crystal structure of nucleoside diphosphate kinase and MgADP. Proc.Natl.Acad.Sci.USA, 94, 1997
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1NDC
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![BU of 1ndc by Molmil](/molmil-images/mine/1ndc) | |
1NSP
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![BU of 1nsp by Molmil](/molmil-images/mine/1nsp) | MECHANISM OF PHOSPHATE TRANSFER BY NUCLEOSIDE DIPHOSPHATE KINASE: X-RAY STRUCTURES OF A PHOSPHO-HISTIDINE INTERMEDIATE OF THE ENZYMES FROM DROSOPHILA AND DICTYOSTELIUM | Descriptor: | NUCLEOSIDE DIPHOSPHATE KINASE | Authors: | Janin, J, Morera, S, Chiadmi, M, Lebras, G, Lascu, I. | Deposit date: | 1995-04-18 | Release date: | 1995-07-10 | Last modified: | 2024-06-05 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Mechanism of phosphate transfer by nucleoside diphosphate kinase: X-ray structures of the phosphohistidine intermediate of the enzymes from Drosophila and Dictyostelium. Biochemistry, 34, 1995
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1HHQ
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![BU of 1hhq by Molmil](/molmil-images/mine/1hhq) | Role of active site resiude Lys16 in Nucleoside Diphosphate Kinase | Descriptor: | NUCLEOSIDE DIPHOSPHATE KINASE, SULFATE ION | Authors: | Schneider, B, Babolat, M, Xu, Y.W, Janin, J, Veron, M, Deville-Bonne, D. | Deposit date: | 2000-12-26 | Release date: | 2001-05-31 | Last modified: | 2023-12-13 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Mechanism of Phosphoryl Transfer by Nucleoside Diphosphate Kinase Ph-Dependence and Role of Active Site Lys16 and Tyr56 Residues Eur.J.Biochem., 268, 2001
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1MN7
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![BU of 1mn7 by Molmil](/molmil-images/mine/1mn7) | NDP kinase mutant (H122G;N119S;F64W) in complex with aBAZTTP | Descriptor: | 3'-AZIDO-3'-DEOXY-THYMIDINE-5'-ALPHA BORANO TRIPHOSPHATE, MAGNESIUM ION, NDP kinase | Authors: | gallois-montbrun, s, schneider, b, chen, y, giacomoni-fernandes, v, mulard, l, morera, s, janin, j, deville-bonne, d, veron, m. | Deposit date: | 2002-09-05 | Release date: | 2002-10-02 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (2.15 Å) | Cite: | Improving nucleoside diphosphate kinase for antiviral nucleotide analogs activation J.BIOL.CHEM., 277, 2002
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1NDK
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![BU of 1ndk by Molmil](/molmil-images/mine/1ndk) | X-RAY STRUCTURE OF NUCLEOSIDE DIPHOSPHATE KINASE | Descriptor: | NUCLEOSIDE DIPHOSPHATE KINASE | Authors: | Janin, J, Dumas, C, Morera, S, Lascu, I, Veron, M. | Deposit date: | 1993-07-15 | Release date: | 1993-10-31 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | X-ray structure of nucleoside diphosphate kinase. EMBO J., 11, 1992
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1NCL
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1NDP
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![BU of 1ndp by Molmil](/molmil-images/mine/1ndp) | ADENOSINE 5'-DIPHOSPHATE BINDING AND THE ACTIVE SITE OF NUCLEOSIDE DIPHOSPHATE KINASE | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, NUCLEOSIDE DIPHOSPHATE KINASE | Authors: | Janin, J, Morera, S, Dumas, C, Lascu, I, Lebras, G, Veron, M. | Deposit date: | 1993-11-29 | Release date: | 1994-04-30 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Adenosine 5'-diphosphate binding and the active site of nucleoside diphosphate kinase. Biochemistry, 33, 1994
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2BEF
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![BU of 2bef by Molmil](/molmil-images/mine/2bef) | CRYSTAL STRUCTURE OF NDP KINASE COMPLEXED WITH MG, ADP, AND BEF3 | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, BERYLLIUM TRIFLUORIDE ION, MAGNESIUM ION, ... | Authors: | Xu, Y.W, Cherfils, J. | Deposit date: | 1998-05-26 | Release date: | 1998-08-12 | Last modified: | 2024-06-05 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | AlF3 mimics the transition state of protein phosphorylation in the crystal structure of nucleoside diphosphate kinase and MgADP. Proc.Natl.Acad.Sci.USA, 94, 1997
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1LWX
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![BU of 1lwx by Molmil](/molmil-images/mine/1lwx) | AZT DIPHOSPHATE BINDING TO NUCLEOSIDE DIPHOSPHATE KINASE | Descriptor: | 3'-AZIDO-3'-DEOXYTHYMIDINE-5'-DIPHOSPHATE, MAGNESIUM ION, NUCLEOSIDE DIPHOSPHATE KINASE | Authors: | Janin, J, Xu, Y. | Deposit date: | 1997-04-30 | Release date: | 1997-08-20 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | X-ray analysis of azido-thymidine diphosphate binding to nucleoside diphosphate kinase. Proc.Natl.Acad.Sci.USA, 94, 1997
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4CP5
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![BU of 4cp5 by Molmil](/molmil-images/mine/4cp5) | ndpK in complex with (Rp)-SPMPApp | Descriptor: | NUCLEOSIDE DIPHOSPHATE KINASE, CYTOSOLIC, [[(2R)-1-(6-aminopurin-9-yl)propan-2-yl]oxymethyl-sulfanyl-phosphoryl] phosphono hydrogen phosphate | Authors: | Priet, S, Ferron, F, Alvarez, K, Verron, M, Canard, B. | Deposit date: | 2014-01-31 | Release date: | 2015-02-11 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (2.32 Å) | Cite: | Enzymatic Synthesis of Acyclic Nucleoside Thiophosphonate Diphosphates: Effect of the Alpha-Phosphorus Configuration on HIV-1 RT Activity. Antiviral Res., 117, 2015
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1B4S
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![BU of 1b4s by Molmil](/molmil-images/mine/1b4s) | STRUCTURE OF NUCLEOSIDE DIPHOSPHATE KINASE H122G MUTANT | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, NUCLEOSIDE DIPHOSPHATE KINASE, ... | Authors: | Meyer, P, Janin, J. | Deposit date: | 1998-12-28 | Release date: | 1999-06-15 | Last modified: | 2024-05-22 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Nucleophilic activation by positioning in phosphoryl transfer catalyzed by nucleoside diphosphate kinase. Biochemistry, 38, 1999
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1HIY
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![BU of 1hiy by Molmil](/molmil-images/mine/1hiy) | Binding of nucleotides to NDP kinase | Descriptor: | 3'-DEOXY 3'-AMINO ADENOSINE-5'-DIPHOSPHATE, NUCLEOSIDE DIPHOSPHATE KINASE | Authors: | Cervoni, L, Lascu, I, Xu, Y, Gonin, P, Morr, M, Merouani, M, Janin, J, Giartoso, A. | Deposit date: | 2001-01-05 | Release date: | 2001-05-31 | Last modified: | 2023-12-13 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Binding of Nucleotides to Nucleoside Diphosphate Kinase: A Calorimetric Study. Biochemistry, 40, 2001
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1LEO
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![BU of 1leo by Molmil](/molmil-images/mine/1leo) | P100S NUCLEOSIDE DIPHOSPHATE KINASE | Descriptor: | NUCLEOSIDE DIPHOSPHATE KINASE | Authors: | Janin, J, Xu, Y, Veron, M. | Deposit date: | 1996-05-22 | Release date: | 1996-11-08 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Nucleoside diphosphate kinase. Investigation of the intersubunit contacts by site-directed mutagenesis and crystallography. J.Biol.Chem., 271, 1996
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1PAE
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![BU of 1pae by Molmil](/molmil-images/mine/1pae) | nucleoside diphosphate kinase | Descriptor: | Nucleoside diphosphate kinase, cytosolic, SELENIUM ATOM | Authors: | Strub, M.-P, Hoh, F, Sanchez, J.-F, Strub, J.M, Bock, A, Aumelas, A, Dumas, C. | Deposit date: | 2003-05-14 | Release date: | 2003-11-11 | Last modified: | 2021-10-27 | Method: | X-RAY DIFFRACTION (2.7 Å) | Cite: | Selenomethionine and Selenocysteine Double Labeling Strategy for Crystallographic Phasing Structure, 11, 2003
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1B99
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![BU of 1b99 by Molmil](/molmil-images/mine/1b99) | 3'-FLUORO-URIDINE DIPHOSPHATE BINDING TO NUCLEOSIDE DIPHOSPHATE KINASE | Descriptor: | 2',3'-DIDEOXY-3'-FLUORO-URIDIDINE-5'-DIPHOSPHATE, PROTEIN (NUCLEOSIDE DIPHOSPHATE KINASE), PYROPHOSPHATE 2- | Authors: | Janin, J, Xu, Y. | Deposit date: | 1999-02-22 | Release date: | 1999-06-28 | Last modified: | 2023-08-09 | Method: | X-RAY DIFFRACTION (2.7 Å) | Cite: | Catalytic mechanism of nucleoside diphosphate kinase investigated using nucleotide analogues, viscosity effects, and X-ray crystallography. Biochemistry, 38, 1999
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1BUX
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![BU of 1bux by Molmil](/molmil-images/mine/1bux) | 3'-PHOSPHORYLATED NUCLEOTIDES BINDING TO NUCLEOSIDE DIPHOSPHATE KINASE | Descriptor: | 3'-PHOSPHATE-ADENOSINE-5'-PHOSPHATE SULFATE, NUCLEOSIDE DIPHOSPHATE KINASE | Authors: | Xu, Y, Schneider, B, Deville-Bonne, D, Veron, M, Janin, J. | Deposit date: | 1998-09-07 | Release date: | 1999-04-27 | Last modified: | 2024-02-07 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | 3'-Phosphorylated nucleotides are tight binding inhibitors of nucleoside diphosphate kinase activity. J.Biol.Chem., 273, 1998
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1MN9
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![BU of 1mn9 by Molmil](/molmil-images/mine/1mn9) | NDP kinase mutant (H122G) complex with RTP | Descriptor: | MAGNESIUM ION, NDP kinase, RIBAVIRIN TRIPHOSPHATE | Authors: | Gallois-montbrun, S, Chen, Y, Dutartre, H, Morera, S, Guerreiro, C, Mulard, L, Schneider, B, Janin, J, Canard, B, Veron, M, Deville-bonne, D. | Deposit date: | 2002-09-05 | Release date: | 2003-03-18 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Structural Analysis of the Activation of Ribavirin Analogs by NDP Kinase: Comparison with Other Ribavirin Targets MOL.PHARMACOL., 63, 2003
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