4LND
 
 | | Crystal structure of human apurinic/apyrimidinic endonuclease 1 with essential Mg2+ cofactor | | Descriptor: | DNA-(apurinic or apyrimidinic site) lyase, MAGNESIUM ION | | Authors: | Manvilla, B.A, Pozharski, E, Toth, E.A, Drohat, A.C. | | Deposit date: | 2013-07-11 | | Release date: | 2013-11-27 | | Last modified: | 2023-09-20 | | Method: | X-RAY DIFFRACTION (1.92 Å) | | Cite: | Structure of human apurinic/apyrimidinic endonuclease 1 with the essential Mg(2+) cofactor.
Acta Crystallogr.,Sect.D, 69, 2013
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3TEB
 | | endonuclease/exonuclease/phosphatase family protein from Leptotrichia buccalis C-1013-b | | Descriptor: | Endonuclease/exonuclease/phosphatase, MAGNESIUM ION | | Authors: | Chang, C, Bigelow, L, Muniez, I, Bearden, J, Joachimiak, A, Midwest Center for Structural Genomics (MCSG) | | Deposit date: | 2011-08-12 | | Release date: | 2011-08-31 | | Method: | X-RAY DIFFRACTION (2.99 Å) | | Cite: | Crystal structure of endonuclease/exonuclease/phosphatase family protein from Leptotrichia buccalis C-1013-b
To be Published
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2O3H
 | | Crystal structure of the human C65A Ape | | Descriptor: | ACETATE ION, DNA-(apurinic or apyrimidinic site) lyase, SAMARIUM (III) ION | | Authors: | Georgiadis, M.M, Gaur, R.K, Delaplane, S, Svenson, J. | | Deposit date: | 2006-12-01 | | Release date: | 2007-12-11 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Evolution of the redox function in mammalian apurinic/apyrimidinic endonuclease
Mutat.Res., 643, 2008
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3U8U
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2O3C
 | | Crystal structure of zebrafish Ape | | Descriptor: | APEX nuclease 1, LEAD (II) ION | | Authors: | Georgiadis, M.M, Gaur, R.K, Delaplane, S, Svenson, J. | | Deposit date: | 2006-12-01 | | Release date: | 2007-12-11 | | Last modified: | 2023-08-30 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Evolution of the redox function in mammalian apurinic/apyrimidinic endonuclease
Mutat.Res., 643, 2008
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1VYB
 | | Endonuclease domain of human LINE1 ORF2p | | Descriptor: | GLYCEROL, ORF2 CONTAINS A REVERSE TRANSCRIPTASE DOMAIN, SULFATE ION, ... | | Authors: | Weichenrieder, O, Repanas, K, Perrakis, A. | | Deposit date: | 2004-04-25 | | Release date: | 2004-06-04 | | Last modified: | 2023-12-13 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Crystal structure of the targeting endonuclease of the human LINE-1 retrotransposon.
Structure, 12, 2004
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3DNI
 | | CRYSTALLOGRAPHIC REFINEMENT AND STRUCTURE OF DNASE I AT 2 ANGSTROMS RESOLUTION | | Descriptor: | CALCIUM ION, DEOXYRIBONUCLEASE I, alpha-D-galactopyranose-(1-6)-beta-D-mannopyranose-(1-3)-[beta-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | | Authors: | Oefner, C, Suck, D. | | Deposit date: | 1992-08-20 | | Release date: | 1994-01-31 | | Last modified: | 2020-07-29 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Crystallographic refinement and structure of DNase I at 2 A resolution.
J.Mol.Biol., 192, 1986
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1HD7
 | | A Second Divalent Metal Ion in the Active Site of a New Crystal Form of Human Apurinic/Apyridinimic Endonuclease, Ape1, and its Implications for the Catalytic Mechanism | | Descriptor: | DNA-(APURINIC OR APYRIMIDINIC SITE) LYASE, LEAD (II) ION | | Authors: | Beernink, P.T, Segelke, B.W, Rupp, B. | | Deposit date: | 2000-11-09 | | Release date: | 2001-02-16 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (1.95 Å) | | Cite: | Two Divalent Metal Ions in the Active Site of a New Crystal Form of Human Apurinic/Apyrimidinic Endonuclease, Ape1: Implications for the Catalytic Mechanism
J.Mol.Biol., 307, 2001
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1I9Y
 | | CRYSTAL STRUCTURE OF INOSITOL POLYPHOSPHATE 5-PHOSPHATASE DOMAIN (IPP5C) OF SPSYNAPTOJANIN | | Descriptor: | PHOSPHATIDYLINOSITOL PHOSPHATE PHOSPHATASE | | Authors: | Tsujishita, Y, Guo, S, Stolz, L, York, J.D, Hurley, J.H. | | Deposit date: | 2001-03-21 | | Release date: | 2001-05-16 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Specificity determinants in phosphoinositide dephosphorylation: crystal structure of an archetypal inositol polyphosphate 5-phosphatase.
Cell(Cambridge,Mass.), 105, 2001
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1I9Z
 | | CRYSTAL STRUCTURE OF INOSITOL POLYPHOSPHATE 5-PHOSPHATASE DOMAIN (IPP5C) OF SPSYNAPTOJANIN IN COMPLEX WITH INOSITOL (1,4)-BISPHOSPHATE AND CALCIUM ION | | Descriptor: | CALCIUM ION, D-MYO-INOSITOL-1,4-BISPHOSPHATE, PHOSPHATIDYLINOSITOL PHOSPHATE PHOSPHATASE | | Authors: | Tsujishita, Y, Guo, S, Stolz, L, York, J.D, Hurley, J.H. | | Deposit date: | 2001-03-21 | | Release date: | 2001-05-16 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Specificity determinants in phosphoinositide dephosphorylation: crystal structure of an archetypal inositol polyphosphate 5-phosphatase.
Cell(Cambridge,Mass.), 105, 2001
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6FK5
 | | Structure of 3' phosphatase NExo (D146N) from Neisseria bound to DNA substrate in presence of magnesium ion | | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, DNA (5'-D(P*CP*TP*AP*GP*CP*GP*AP*AP*GP*CP*TP*AP*GP*A)-3'), MAGNESIUM ION, ... | | Authors: | Silhan, J, Zhao, Q, Boura, E, Thomson, H, Foster, A, Tang, C.M, Freemont, P.S, Baldwin, G.S. | | Deposit date: | 2018-01-23 | | Release date: | 2018-10-31 | | Last modified: | 2024-01-17 | | Method: | X-RAY DIFFRACTION (2.02 Å) | | Cite: | Structural basis for recognition and repair of the 3'-phosphate by NExo, a base excision DNA repair nuclease from Neisseria meningitidis.
Nucleic Acids Res., 46, 2018
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6FKE
 | | Structure of 3' phosphatase NExo (D146N) from Neisseria bound to product DNA hairpin | | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, DNA (5'-D(*GP*TP*AP*GP*CP*GP*AP*AP*GP*CP*TP*A)-3'), Exodeoxyribonuclease III, ... | | Authors: | Silhan, J, Zhao, Q, Boura, E, Thomson, H, Foster, A, Tang, C.M, Freemont, P.S, Baldwin, G.S. | | Deposit date: | 2018-01-23 | | Release date: | 2018-10-31 | | Last modified: | 2024-01-17 | | Method: | X-RAY DIFFRACTION (2.151 Å) | | Cite: | Structural basis for recognition and repair of the 3'-phosphate by NExo, a base excision DNA repair nuclease from Neisseria meningitidis.
Nucleic Acids Res., 46, 2018
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6FK4
 | | Structure of 3' phosphatase NExo (WT) from Neisseria bound to DNA substrate | | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, DNA (5'-D(P*GP*CP*TP*AP*GP*CP*GP*AP*AP*GP*CP*TP*AP*GP*A)-3'), Exodeoxyribonuclease III | | Authors: | Silhan, J, Zhao, Q, Boura, E, Thomson, H, Foster, A, Tang, C.M, Freemont, P.S, Baldwin, G.S. | | Deposit date: | 2018-01-23 | | Release date: | 2018-10-31 | | Last modified: | 2024-01-17 | | Method: | X-RAY DIFFRACTION (2.297 Å) | | Cite: | Structural basis for recognition and repair of the 3'-phosphate by NExo, a base excision DNA repair nuclease from Neisseria meningitidis.
Nucleic Acids Res., 46, 2018
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2V0R
 | | crystal structure of a hairpin exchange variant (LTx) of the targeting LINE-1 retrotransposon endonuclease | | Descriptor: | LTX, SULFATE ION | | Authors: | Repanas, K, Zingler, N, Layer, L.E, Schumann, G.G, Perrakis, A, Weichenrieder, O. | | Deposit date: | 2007-05-17 | | Release date: | 2007-07-17 | | Last modified: | 2023-12-13 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Determinants for DNA Target Structure Selectivity of the Human Line-1 Retrotransposon Endonuclease
Nucleic Acids Res., 35, 2007
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2V0S
 | | crystal structure of a hairpin exchange variant (LR1) of the targeting LINE-1 retrotransposon endonuclease | | Descriptor: | GLYCEROL, LR1, MANGANESE (II) ION, ... | | Authors: | Repanas, K, Zingler, N, Layer, L.E, Schumann, G.G, Perrakis, A, Weichenrieder, O. | | Deposit date: | 2007-05-17 | | Release date: | 2007-07-17 | | Last modified: | 2023-12-13 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Determinants for DNA Target Structure Selectivity of the Human Line-1 Retrotransposon Endonuclease.
Nucleic Acids Res., 35, 2007
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2UYR
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2VOA
 | | Structure of an AP Endonuclease from Archaeoglobus fulgidus | | Descriptor: | 5'-D(*CP*GP*GP*CP*TP*AP*CP*CP*GP*CP)-3', 5'-D(*GP*CP*GP*GP*TP*AP*GP*CP*CP*GP)-3', EXODEOXYRIBONUCLEASE III | | Authors: | Kuettner, E.B, Schmiedel, R, Greiner-Stoffele, T, Strater, N. | | Deposit date: | 2008-02-11 | | Release date: | 2008-12-09 | | Last modified: | 2023-12-13 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Structure and Function of the Abasic Site Specificity Pocket of an Ap Endonuclease from Archaeoglobus Fulgidus.
DNA Repair, 8, 2009
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3L1W
 | | The crystal structure of a functionally unknown conserved protein from Enterococcus faecalis V583 | | Descriptor: | 1,2-ETHANEDIOL, FORMIC ACID, SULFATE ION, ... | | Authors: | Tan, K, Rakowski, E, Jedrzejczak, R, Joachimiak, A, Midwest Center for Structural Genomics (MCSG) | | Deposit date: | 2009-12-14 | | Release date: | 2010-01-12 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | The crystal structure of a functionally unknown conserved protein from Enterococcus faecalis V583
To be Published
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4PUQ
 | | Mus Musculus Tdp2 reaction product complex with 5'-phosphorylated RNA/DNA, glycerol, and Mg2+ | | Descriptor: | ACETATE ION, DNA/RNA hybrid, GLYCEROL, ... | | Authors: | Schellenberg, M.J, Williams, R.S. | | Deposit date: | 2014-03-13 | | Release date: | 2014-05-14 | | Last modified: | 2023-09-20 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | Proteolytic Degradation of Topoisomerase II (Top2) Enables the Processing of Top2DNA and Top2RNA Covalent Complexes by Tyrosyl-DNA-Phosphodiesterase 2 (TDP2).
J.Biol.Chem., 289, 2014
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4QHE
 | | Crystal structure of Mg2+ bound human APE1 | | Descriptor: | 1,2-ETHANEDIOL, DNA-(apurinic or apyrimidinic site) lyase, MAGNESIUM ION | | Authors: | He, H, Chen, Q, Georgiadis, M.M. | | Deposit date: | 2014-05-28 | | Release date: | 2014-11-12 | | Last modified: | 2024-02-28 | | Method: | X-RAY DIFFRACTION (1.4 Å) | | Cite: | High-resolution crystal structures reveal plasticity in the metal binding site of apurinic/apyrimidinic endonuclease I.
Biochemistry, 53, 2014
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4QHD
 | | Crystal structure of apo human APE1 | | Descriptor: | 1,2-ETHANEDIOL, DNA-(apurinic or apyrimidinic site) lyase | | Authors: | He, H, Chen, Q, Georgiadis, M.M. | | Deposit date: | 2014-05-28 | | Release date: | 2014-11-12 | | Last modified: | 2024-02-28 | | Method: | X-RAY DIFFRACTION (1.65 Å) | | Cite: | High-resolution crystal structures reveal plasticity in the metal binding site of apurinic/apyrimidinic endonuclease I.
Biochemistry, 53, 2014
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4QH9
 | | Crystal structure of Mn2+ bound human APE1 | | Descriptor: | 1,2-ETHANEDIOL, DNA-(apurinic or apyrimidinic site) lyase, MANGANESE (II) ION | | Authors: | Chen, Q, He, H, Georgiadis, M.M. | | Deposit date: | 2014-05-27 | | Release date: | 2014-11-12 | | Last modified: | 2024-02-28 | | Method: | X-RAY DIFFRACTION (2.175 Å) | | Cite: | High-resolution crystal structures reveal plasticity in the metal binding site of apurinic/apyrimidinic endonuclease I.
Biochemistry, 53, 2014
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7CD6
 | | mAPE1-recessed dsDNA product complex | | Descriptor: | DNA (5'-D(*GP*CP*GP*TP*AP*AP*TP*AP*C)-3'), DNA-(apurinic or apyrimidinic site) endonuclease | | Authors: | Liu, T.C, Hsiao, Y.Y. | | Deposit date: | 2020-06-18 | | Release date: | 2021-01-13 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.701 Å) | | Cite: | APE1 distinguishes DNA substrates in exonucleolytic cleavage by induced space-filling.
Nat Commun, 12, 2021
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3MPR
 | | Crystal Structure of endonuclease/exonuclease/phosphatase family protein from Bacteroides thetaiotaomicron, Northeast Structural Genomics Consortium Target BtR318A | | Descriptor: | ACETIC ACID, BROMIDE ION, DI(HYDROXYETHYL)ETHER, ... | | Authors: | Kuzin, A, Su, M, Seetharaman, J, Mao, M, Xiao, R, Ciccosanti, C, Lee, D, Everett, J.K, Nair, R, Acton, T.B, Rost, B, Montelione, G.T, Hunt, J.F, Tong, L, Northeast Structural Genomics Consortium (NESG) | | Deposit date: | 2010-04-27 | | Release date: | 2010-05-26 | | Last modified: | 2019-07-17 | | Method: | X-RAY DIFFRACTION (1.899 Å) | | Cite: | Northeast Structural Genomics Consortium Target BtR318A
To be Published
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7CD5
 | | mAPE1-blunt-ended dsDNA product complex | | Descriptor: | DNA(5'-D(*CP*GP*TP*AP*AP*TP*AP*CP*G)-3'), DNA-(apurinic or apyrimidinic site) endonuclease | | Authors: | Liu, T.C, Hsiao, Y.Y. | | Deposit date: | 2020-06-18 | | Release date: | 2021-01-13 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.7 Å) | | Cite: | APE1 distinguishes DNA substrates in exonucleolytic cleavage by induced space-filling.
Nat Commun, 12, 2021
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