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1DE9
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BU of 1de9 by Molmil
HUMAN APE1 ENDONUCLEASE WITH BOUND ABASIC DNA AND MN2+ ION
Descriptor: 5'-d(*CP*TP*AP*C)-3', 5'-d(*GP*AP*TP*CP*GP*GP*TP*AP*G)-3', 5'-d(P*(3DR)P*GP*AP*TP*C)-3', ...
Authors:Mol, C.D, Izumi, T, Mitra, S, Tainer, J.A.
Deposit date:1999-11-13
Release date:2000-02-02
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (3 Å)
Cite:DNA-bound structures and mutants reveal abasic DNA binding by APE1 and DNA repair coordination
Nature, 403, 2000
1DEW
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BU of 1dew by Molmil
CRYSTAL STRUCTURE OF HUMAN APE1 BOUND TO ABASIC DNA
Descriptor: 5'-D(*GP*CP*GP*TP*CP*CP*(3DR)P*CP*GP*AP*CP*GP*AP*CP*G)-3', 5'-D(*GP*TP*CP*GP*TP*CP*GP*GP*GP*GP*AP*CP*GP*C)-3', MAJOR APURINIC/APYRIMIDINIC ENDONUCLEASE, ...
Authors:Mol, C.D, Izumi, T, Mitra, S, Tainer, J.A.
Deposit date:1999-11-15
Release date:2000-02-02
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (2.65 Å)
Cite:DNA-bound structures and mutants reveal abasic DNA binding by APE1 and DNA repair coordination
Nature, 403, 2000
1DE8
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BU of 1de8 by Molmil
HUMAN APURINIC/APYRIMIDINIC ENDONUCLEASE-1 (APE1) BOUND TO ABASIC DNA
Descriptor: DNA (5'-D(*CP*GP*AP*TP*CP*GP*GP*TP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*AP*CP*(3DR)P*GP*AP*TP*CP*G)-3'), MAJOR APURINIC/APYRIMIDINIC ENDONUCLEASE
Authors:Mol, C.D, Izumi, T, Mitra, S, Tainer, J.A.
Deposit date:1999-11-13
Release date:2000-02-02
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (2.95 Å)
Cite:DNA-bound structures and mutants reveal abasic DNA binding by APE1 and DNA repair coordination [corrected
Nature, 403, 2000
1DNK
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BU of 1dnk by Molmil
THE X-RAY STRUCTURE OF THE DNASE I-D(GGTATACC)2 COMPLEX AT 2.3 ANGSTROMS RESOLUTION
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, DNA (5'-D(*GP*GP*TP*AP*TP*AP*C)-3'), DNA (5'-D(*GP*GP*TP*AP*TP*AP*CP*C)-3'), ...
Authors:Weston, S.A, Lahm, A, Suck, D.
Deposit date:1992-08-10
Release date:1994-01-31
Last modified:2020-07-29
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:X-ray structure of the DNase I-d(GGTATACC)2 complex at 2.3 A resolution.
J.Mol.Biol., 226, 1992
2DDR
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BU of 2ddr by Molmil
Crystal structure of sphingomyelinase from Bacillus cereus with calcium ion
Descriptor: CALCIUM ION, Sphingomyelin phosphodiesterase
Authors:Ago, H, Oda, M, Takahashi, M, Tsuge, H, Ochi, S, Katunuma, N, Miyano, M, Sakurai, J, RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2006-02-02
Release date:2006-05-02
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.4 Å)
Cite:Structural Basis of the Sphingomyelin Phosphodiesterase Activity in Neutral Sphingomyelinase from Bacillus cereus.
J.Biol.Chem., 281, 2006
5INK
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BU of 5ink by Molmil
Mouse Tdp2 reaction product (5'-phosphorylated DNA)-abasic/THF-Mg2+ complex
Descriptor: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, DI(HYDROXYETHYL)ETHER, DNA (5'-D(P*(3DR)P*CP*GP*AP*AP*TP*TP*CP*G)-3'), ...
Authors:Schellenberg, M.J, Williams, R.S.
Deposit date:2016-03-07
Release date:2016-04-27
Last modified:2023-09-27
Method:X-RAY DIFFRACTION (2.15 Å)
Cite:Reversal of DNA damage induced Topoisomerase 2 DNA-protein crosslinks by Tdp2.
Nucleic Acids Res., 44, 2016
5INM
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BU of 5inm by Molmil
Mouse Tdp2 protein, apo state with variable DNA-binding grasp conformations
Descriptor: GLYCEROL, MAGNESIUM ION, SULFATE ION, ...
Authors:Schellenberg, M.J, Williams, R.S.
Deposit date:2016-03-07
Release date:2016-04-27
Last modified:2023-09-27
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Reversal of DNA damage induced Topoisomerase 2 DNA-protein crosslinks by Tdp2.
Nucleic Acids Res., 44, 2016
5J3S
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BU of 5j3s by Molmil
Crystal structure of the catalytic domain of human tyrosyl DNA phosphodiesterase 2 in complex with a small molecule inhibitor
Descriptor: 2,4-dioxo-10-[3-(1H-tetrazol-5-yl)phenyl]-2,3,4,10-tetrahydropyrimido[4,5-b]quinoline-8-carbonitrile, Tyrosyl-DNA phosphodiesterase 2
Authors:Hornyak, P, Pearl, L.H, Caldecott, K.W, Oliver, A.W.
Deposit date:2016-03-31
Release date:2016-05-04
Last modified:2024-01-10
Method:X-RAY DIFFRACTION (3.4 Å)
Cite:Mode of action of DNA-competitive small molecule inhibitors of tyrosyl DNA phosphodiesterase 2.
Biochem.J., 473, 2016
5J3Z
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BU of 5j3z by Molmil
Crystal structure of m2hTDP2-CAT in complex with a small molecule inhibitor
Descriptor: 1,2-ETHANEDIOL, 2,4-dioxo-10-[3-(1H-tetrazol-5-yl)phenyl]-2,3,4,10-tetrahydropyrimido[4,5-b]quinoline-8-carbonitrile, ACETATE ION, ...
Authors:Hornyak, P, Pearl, L.H, Caldecott, K.W, Oliver, A.W.
Deposit date:2016-03-31
Release date:2016-05-04
Last modified:2024-01-10
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Mode of action of DNA-competitive small molecule inhibitors of tyrosyl DNA phosphodiesterase 2.
Biochem.J., 473, 2016
5CFE
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BU of 5cfe by Molmil
Bacillus subtilis AP endonuclease ExoA
Descriptor: CALCIUM ION, DI(HYDROXYETHYL)ETHER, Exodeoxyribonuclease
Authors:Morera, S, Vigouroux, A.
Deposit date:2015-07-08
Release date:2016-07-06
Last modified:2024-01-10
Method:X-RAY DIFFRACTION (1.84 Å)
Cite:Structural comparison of AP endonucleases from the exonuclease III family reveals new amino acid residues in human AP endonuclease 1 that are involved in incision of damaged DNA.
Biochimie, 128-129, 2016
5CFG
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BU of 5cfg by Molmil
C2 crystal form of APE1 with Mg2+
Descriptor: DNA-(apurinic or apyrimidinic site) lyase, MAGNESIUM ION
Authors:Morera, S, Vigouroux, A.
Deposit date:2015-07-08
Release date:2016-07-06
Last modified:2024-01-10
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Structural comparison of AP endonucleases from the exonuclease III family reveals new amino acid residues in human AP endonuclease 1 that are involved in incision of damaged DNA.
Biochimie, 128-129, 2016
5INL
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BU of 5inl by Molmil
Mouse Tdp2 reaction product (5'-phosphorylated DNA)-Mg2+ complex with deoxyadenosine
Descriptor: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, DI(HYDROXYETHYL)ETHER, DNA (5'-D(P*AP*CP*GP*AP*AP*TP*TP*CP*G)-3'), ...
Authors:Schellenberg, M.J, Vilas, C.K, Williams, R.S.
Deposit date:2016-03-07
Release date:2016-04-27
Last modified:2023-09-27
Method:X-RAY DIFFRACTION (1.551 Å)
Cite:Reversal of DNA damage induced Topoisomerase 2 DNA-protein crosslinks by Tdp2.
Nucleic Acids Res., 44, 2016
5INQ
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BU of 5inq by Molmil
Mouse Tdp2 reaction product (5'-phosphorylated DNA)-Ca2+ complex
Descriptor: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, CALCIUM ION, DI(HYDROXYETHYL)ETHER, ...
Authors:Schellenberg, M.J, Williams, R.S.
Deposit date:2016-03-07
Release date:2016-04-27
Last modified:2023-09-27
Method:X-RAY DIFFRACTION (1.848 Å)
Cite:Reversal of DNA damage induced Topoisomerase 2 DNA-protein crosslinks by Tdp2.
Nucleic Acids Res., 44, 2016
5DFI
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BU of 5dfi by Molmil
Human APE1 phosphorothioate substrate complex
Descriptor: 1,2-ETHANEDIOL, CHLORIDE ION, DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*(OMC)P*(48Z)P*CP*GP*AP*CP*GP*GP*AP*TP*CP*C)-3'), ...
Authors:Freudenthal, B.D, Wilson, S.H.
Deposit date:2015-08-26
Release date:2015-10-14
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.63 Å)
Cite:Capturing snapshots of APE1 processing DNA damage.
Nat.Struct.Mol.Biol., 22, 2015
5DFH
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BU of 5dfh by Molmil
Human APE1 mismatch product complex
Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*T)-3'), DNA (5'-D(*GP*GP*AP*TP*CP*CP*GP*TP*CP*GP*GP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ...
Authors:Freudenthal, B.D, Wilson, S.H.
Deposit date:2015-08-26
Release date:2015-10-14
Last modified:2023-09-27
Method:X-RAY DIFFRACTION (1.949 Å)
Cite:Capturing snapshots of APE1 processing DNA damage.
Nat.Struct.Mol.Biol., 22, 2015
5DG0
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BU of 5dg0 by Molmil
Human APE1 phosphorothioate substrate complex with Mn2+
Descriptor: 1,2-ETHANEDIOL, CHLORIDE ION, DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*(OMC)P*(48Z)P*CP*GP*AP*CP*GP*GP*AP*TP*CP*C)-3'), ...
Authors:Freudenthal, B.D, Wilson, S.H.
Deposit date:2015-08-27
Release date:2015-10-14
Last modified:2023-09-27
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Capturing snapshots of APE1 processing DNA damage.
Nat.Struct.Mol.Biol., 22, 2015
5DFF
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BU of 5dff by Molmil
Human APE1 product complex
Descriptor: 1,2-ETHANEDIOL, CHLORIDE ION, DI(HYDROXYETHYL)ETHER, ...
Authors:Freudenthal, B.D, Wilson, S.H.
Deposit date:2015-08-26
Release date:2015-10-14
Last modified:2024-03-06
Method:X-RAY DIFFRACTION (1.57 Å)
Cite:Capturing snapshots of APE1 processing DNA damage.
Nat.Struct.Mol.Biol., 22, 2015
5DFJ
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BU of 5dfj by Molmil
Human APE1 E96Q/D210N mismatch substrate complex
Descriptor: 1,2-ETHANEDIOL, CHLORIDE ION, DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*TP*(3DR)P*CP*GP*AP*CP*GP*GP*AP*TP*CP*C)-3'), ...
Authors:Freudenthal, B.D, Wilson, S.H.
Deposit date:2015-08-26
Release date:2015-10-14
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (1.85 Å)
Cite:Capturing snapshots of APE1 processing DNA damage.
Nat.Struct.Mol.Biol., 22, 2015
5J42
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BU of 5j42 by Molmil
Crystal structure of m2hTDP2-CAT in complex with a small molecule inhibitor
Descriptor: 1,2-ETHANEDIOL, 10-(4-hydroxyphenyl)-2,4-dioxo-2,3,4,10-tetrahydropyrimido[4,5-b]quinoline-8-carbonitrile, GLYCEROL, ...
Authors:Hornyak, P, Pearl, L.H, Caldecott, K.W, Oliver, A.W.
Deposit date:2016-03-31
Release date:2016-05-04
Last modified:2024-01-10
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Mode of action of DNA-competitive small molecule inhibitors of tyrosyl DNA phosphodiesterase 2.
Biochem.J., 473, 2016
5J3P
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BU of 5j3p by Molmil
Crystal structure of the catalytic domain of human tyrosyl DNA phosphodiesterase 2
Descriptor: GLYCEROL, MAGNESIUM ION, Tyrosyl-DNA phosphodiesterase 2
Authors:Hornyak, P, Pearl, L.H, Caldecott, K.W, Oliver, A.W.
Deposit date:2016-03-31
Release date:2016-05-04
Last modified:2024-01-10
Method:X-RAY DIFFRACTION (3.1 Å)
Cite:Mode of action of DNA-competitive small molecule inhibitors of tyrosyl DNA phosphodiesterase 2.
Biochem.J., 473, 2016
5J8N
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BU of 5j8n by Molmil
Exonuclease III homologue Mm3148 from Methanosarcina mazei
Descriptor: Exodeoxyribonuclease III, MAGNESIUM ION, TETRAETHYLENE GLYCOL
Authors:Lakomek, K, Dickmanns, A, Ficner, R.
Deposit date:2016-04-08
Release date:2016-04-27
Last modified:2024-01-10
Method:X-RAY DIFFRACTION (1.44 Å)
Cite:Structure of the archael ExoIII homologue Mm3148 at 1.4 Angstrom
To Be Published
5DV2
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BU of 5dv2 by Molmil
Crystal structure of human CNOT6L in complex with cytidine-5'-monophosphate
Descriptor: CCR4-NOT transcription complex subunit 6-like, CYTIDINE-5'-MONOPHOSPHATE
Authors:Zhang, Q, Bartlam, M.
Deposit date:2015-09-21
Release date:2016-05-18
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.07 Å)
Cite:Structural basis for inhibition of the deadenylase activity of human CNOT6L
Febs Lett., 590, 2016
5DV4
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BU of 5dv4 by Molmil
Crystal structure of human CNOT6L in complex with neomycin
Descriptor: CCR4-NOT transcription complex subunit 6-like, NEOMYCIN, SULFATE ION
Authors:Zhang, Q, Bartlam, M.
Deposit date:2015-09-21
Release date:2016-10-26
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Structural basis for inhibition of the deadenylase activity of human CNOT6L
Febs Lett., 590, 2016
6BOS
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BU of 6bos by Molmil
Human APE1 substrate complex with an A/C mismatch adjacent the THF
Descriptor: 21-mer DNA, DNA-(apurinic or apyrimidinic site) lyase
Authors:Freudenthal, B.D, Whitaker, A.M, Fairlamb, M.S.
Deposit date:2017-11-20
Release date:2018-08-15
Last modified:2023-10-04
Method:X-RAY DIFFRACTION (2.304 Å)
Cite:Apurinic/apyrimidinic (AP) endonuclease 1 processing of AP sites with 5' mismatches.
Acta Crystallogr D Struct Biol, 74, 2018
6BT2
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BU of 6bt2 by Molmil
Structure of the human Nocturnin catalytic domain with bound sulfate anion
Descriptor: MAGNESIUM ION, Nocturnin, SULFATE ION
Authors:Abshire, E.T, Chasseur, J, Del Rizzo, P, Trievel, R.
Deposit date:2017-12-04
Release date:2018-05-16
Last modified:2024-04-03
Method:X-RAY DIFFRACTION (2.411 Å)
Cite:The structure of human Nocturnin reveals a conserved ribonuclease domain that represses target transcript translation and abundance in cells.
Nucleic Acids Res., 46, 2018

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