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1K3W
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BU of 1k3w by Molmil
Crystal structure of a trapped reaction intermediate of the DNA Repair Enzyme Endonuclease VIII with DNA
Descriptor: 5'-D(*CP*CP*AP*GP*GP*AP*(PED)P*GP*AP*AP*GP*CP*C)-3', 5'-D(*GP*GP*CP*TP*TP*CP*AP*TP*CP*CP*TP*GP*G)-3', Endonuclease VIII, ...
Authors:Golan, G, Zharkov, D.O, Gilboa, R, Fernandes, A.S, Kycia, J.H, Gerchman, S.E, Rieger, R.A, Grollman, A.P, Shoham, G.
Deposit date:2001-10-04
Release date:2002-10-04
Last modified:2019-07-24
Method:X-RAY DIFFRACTION (1.42 Å)
Cite:Structural analysis of an Escherichia coli endonuclease VIII covalent reaction intermediate.
EMBO J., 21, 2002
1K3X
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BU of 1k3x by Molmil
Crystal structure of a trapped reaction intermediate of the DNA repair enzyme Endonuclease VIII with Brominated-DNA
Descriptor: 5'-D(*CP*CP*AP*GP*GP*AP*(PED)P*GP*AP*AP*GP*CP*C)-3', 5'-D(*GP*GP*CP*(BRU)P*(BRU)P*CP*AP*(BRU)P*CP*CP*(BRU)P*GP*G)-3', Endonuclease VIII, ...
Authors:Golan, G, Zharkov, D.O, Gilboa, R, Fernandes, A.S, Kycia, J.H, Gerchman, S.E, Rieger, R.A, Grollman, A.P, Shoham, G.
Deposit date:2001-10-04
Release date:2002-10-04
Last modified:2023-08-16
Method:X-RAY DIFFRACTION (1.25 Å)
Cite:Structural analysis of an Escherichia coli endonuclease VIII covalent reaction intermediate.
EMBO J., 21, 2002
6FBU
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BU of 6fbu by Molmil
Crystal structure of the DNA repair enzyme endonuclease-VIII (Nei) from E. coli (E2Q) in complex with AP-site containing DNA substrate
Descriptor: ACETATE ION, DNA (5'-D(P*CP*CP*AP*GP*GP*AP*(PED)P*GP*AP*AP*GP*CP*C)-3'), DNA (5'-D(P*GP*GP*CP*TP*TP*CP*AP*TP*CP*CP*TP*G)-3'), ...
Authors:Pomyalov, S, Lansky, S, Golan, G, Zharkov, D.O, Grollman, A.P, Shoham, G.
Deposit date:2017-12-19
Release date:2019-01-30
Last modified:2024-01-17
Method:X-RAY DIFFRACTION (2 Å)
Cite:Crystal structure of the DNA repair enzyme endonuclease-VIII (Nei) from E. coli (E2Q) in complex with AP-site containing DNA substrate
To Be Published
2FCC
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BU of 2fcc by Molmil
Crystal Structure of T4 Pyrimidine Dimer Glycosylase (T4-Pdg) Covalently Complexed with a DNA Substrate Containing Abasic Site
Descriptor: DNA (5'-D(*CP*CP*AP*GP*GP*AP*(PED)P*GP*AP*AP*GP*CP*C)-3'), DNA (5'-D(*GP*GP*CP*(BRU)P*(BRU)P*CP*AP*(BRU)P*CP*CP*(BRU)P*GP*G)-3'), Endonuclease V, ...
Authors:Golan, G, Zharkov, D.O, Fernandes, A.S, Dodson, M.L, McCullough, A.K, Grollman, A.P, Lloyd, R.S, Shoham, G.
Deposit date:2005-12-12
Release date:2006-10-03
Last modified:2023-08-30
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structure of T4 Pyrimidine Dimer Glycosylase in a Reduced Imine Covalent Complex with Abasic Site-containing DNA.
J.Mol.Biol., 362, 2006
6ALT
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BU of 6alt by Molmil
Solution structure of a DNA dodecamer with 5-methylcytosine at the 3rd and 9th position
Descriptor: DNA (5'-D(*(DC5)P*GP*(DMC)P*GP*AP*AP*TP*TP*(DMC)P*GP*CP*(DG3))-3')
Authors:Gruber, D.R, Hoppins, J.J, Miears, H.L, Zharkov, D.O, Smirnov, S.L.
Deposit date:2017-08-08
Release date:2017-09-20
Last modified:2019-11-27
Method:SOLUTION NMR
Cite:Oxidative damage to epigenetically methylated sites affects DNA stability, dynamics and enzymatic demethylation.
Nucleic Acids Res., 46, 2018
6ALU
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BU of 6alu by Molmil
Solution structure of a DNA dodecamer with 5-methylcytosine at the 3rd and 8-oxoguanine at the 4th position
Descriptor: DNA (5'-D(*(DC5)P*GP*(DMC)P*(8OG)P*AP*AP*TP*TP*CP*GP*CP*(DG3))-3')
Authors:Gruber, D.R, Shernyukov, A.V, Endutkin, A.V, Bagryanskaya, E.G, Zharkov, D.O, Smirnov, S.L.
Deposit date:2017-08-08
Release date:2017-09-06
Last modified:2019-11-27
Method:SOLUTION NMR
Cite:Oxidative damage to epigenetically methylated sites affects DNA stability, dynamics and enzymatic demethylation.
Nucleic Acids Res., 46, 2018
6ALS
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BU of 6als by Molmil
Solution structure of a DNA dodecamer with 5-methylcytosine at the 3rd and 9th position and 8-oxoguanine at the 4th position
Descriptor: DNA (5'-D(*(DC5)P*GP*(DMC)P*(8OG)P*AP*AP*TP*TP*(DMC)P*GP*CP*(DG3))-3')
Authors:Gruber, D.R, Shernyukov, A.V, Endutkin, A.V, Bagryanskaya, E.G, Zharkov, D.O, Smirnov, S.L.
Deposit date:2017-08-08
Release date:2017-09-06
Last modified:2019-11-27
Method:SOLUTION NMR
Cite:Oxidative damage to epigenetically methylated sites affects DNA stability, dynamics and enzymatic demethylation.
Nucleic Acids Res., 46, 2018
5L06
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BU of 5l06 by Molmil
Solution Structure of a DNA Dodecamer with 5-methylcytosine at the 3rd Position
Descriptor: DNA (5'-D(*CP*GP*(5CM)P*GP*AP*AP*TP*TP*CP*GP*CP*G)-3')
Authors:Miears, H.L, Hoppins, J.J, Gruber, D.R, Kasymov, R.D, Zharkov, D.O, Smirnov, S.L.
Deposit date:2016-07-26
Release date:2016-12-21
Last modified:2019-11-27
Method:SOLUTION NMR
Cite:Oxidative damage to epigenetically methylated sites affects DNA stability, dynamics and enzymatic demethylation.
Nucleic Acids Res., 46, 2018
5L2G
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BU of 5l2g by Molmil
Solution Structure of a DNA Dodecamer with 5-methylcytosine at the 9th Position
Descriptor: DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(5CM)P*GP*CP*G)-3')
Authors:Miears, H.L, Hoppins, J.J, Gruber, D.R, Kasymov, R.D, Johnson, E.C, Zharkov, D.O, Smirnov, S.L.
Deposit date:2016-08-01
Release date:2016-12-21
Last modified:2019-11-27
Method:SOLUTION NMR
Cite:Oxidative damage to epigenetically methylated sites affects DNA stability, dynamics and enzymatic demethylation.
Nucleic Acids Res., 46, 2018
2OQ4
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BU of 2oq4 by Molmil
Crystal structure of the DNA repair enzyme endonuclease-VIII (Nei) from E. coli (E2Q) in complex with AP-site containing DNA substrate
Descriptor: 5'-D(*C*CP*AP*GP*GP*AP*(PED)P*GP*AP*AP*GP*CP*C)-3', 5'-D(*G*GP*CP*TP*TP*CP*AP*TP*CP*CP*TP*GP*G)-3', Endonuclease VIII, ...
Authors:Golan, G, Zharkov, D.O, Grollman, A.P, Shoahm, G.
Deposit date:2007-01-31
Release date:2008-02-26
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Active site plasticity of endonuclease VIII: Conformational changes compensating for different substrates and mutations of critical residues
To be Published
5TRN
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BU of 5trn by Molmil
Solution Structure of a DNA Dodecamer with 8-oxoguanine at the 4th position and 5-methylcytosine at the 9th position
Descriptor: DNA (5'-D(*CP*GP*CP*(8OG)P*AP*AP*TP*TP*(DMC)P*GP*CP*G)-3')
Authors:Hoppins, J.J, Gruber, D.R, Miears, H.L, Endutkin, A.V, Zharkov, D.O, Smirnov, S.L.
Deposit date:2016-10-26
Release date:2017-06-28
Last modified:2019-11-27
Method:SOLUTION NMR
Cite:Oxidative damage to epigenetically methylated sites affects DNA stability, dynamics and enzymatic demethylation.
Nucleic Acids Res., 46, 2018
5UZ1
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BU of 5uz1 by Molmil
Solution Structure of a DNA Dodecamer with 5-methylcytosine at the 3rd position and 8-oxoguanine at the 10th position
Descriptor: DNA (5'-D(*CP*GP*(DMC)P*GP*AP*AP*TP*TP*CP*(8OG)P*CP*G)-3')
Authors:Gruber, D.R, Hoppins, J.J, Miears, H.L, Endutkin, A.V, Zharkov, D.O, Smirnov, S.L.
Deposit date:2017-02-24
Release date:2017-05-31
Last modified:2019-11-27
Method:SOLUTION NMR
Cite:Oxidative damage to epigenetically methylated sites affects DNA stability, dynamics and enzymatic demethylation.
Nucleic Acids Res., 46, 2018
5UZ3
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BU of 5uz3 by Molmil
Solution Structure of a DNA Dodecamer with 5-methylcytosine at the 9th position and 8-oxoguanine at the 10th position
Descriptor: DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(DMC)P*(8OG)P*CP*G)-3')
Authors:Gruber, D.R, Hoppins, J.J, Miears, H.L, Endutkin, A.V, Zharkov, D.O, Smirnov, S.L.
Deposit date:2017-02-24
Release date:2017-05-31
Last modified:2019-11-27
Method:SOLUTION NMR
Cite:Oxidative damage to epigenetically methylated sites affects DNA stability, dynamics and enzymatic demethylation.
Nucleic Acids Res., 46, 2018
5UZ2
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BU of 5uz2 by Molmil
Solution Structure of a DNA Dodecamer with 5-methylcytosine at the 3rd and 9th position and 8-oxoguanine at the 10th position
Descriptor: DNA (5'-D(*CP*GP*(DMC)P*GP*AP*AP*TP*TP*(DMC)P*(8OG)P*CP*G)-3')
Authors:Gruber, D.R, Hoppins, J.J, Miears, H.L, Endutkin, A.V, Zharkov, D.O, Smirnov, S.L.
Deposit date:2017-02-24
Release date:2017-03-29
Last modified:2019-11-27
Method:SOLUTION NMR
Cite:Oxidative damage to epigenetically methylated sites affects DNA stability, dynamics and enzymatic demethylation.
Nucleic Acids Res., 46, 2018
5IV1
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BU of 5iv1 by Molmil
Solution Structure of DNA Dodecamer with 8-oxoguanine at 4th Position
Descriptor: DNA (5'-D(*CP*GP*CP*(8OG)P*AP*AP*TP*TP*CP*GP*CP*G)-3')
Authors:Miears, H.L, Gruber, D.R, Hoppins, J.J, Kiryutin, A.S, Kasymov, R.D, Yurkovskaya, A.V, Zharkov, D.O, Smirnov, S.L.
Deposit date:2016-03-18
Release date:2016-07-27
Last modified:2019-11-27
Method:SOLUTION NMR
Cite:8-Oxoguanine Affects DNA Backbone Conformation in the EcoRI Recognition Site and Inhibits Its Cleavage by the Enzyme.
Plos One, 11, 2016
5IZP
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BU of 5izp by Molmil
Solution Structure of DNA Dodecamer with 8-oxoguanine at 10th Position
Descriptor: DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*(8OG)P*CP*G)-3')
Authors:Gruber, D.R, Hoppins, J.J, Miears, H.L, Kiryutin, A.S, Kasymov, R.D, Yurkovskaya, A.V, Zharkov, D.O, Smirnov, S.L.
Deposit date:2016-03-25
Release date:2016-08-03
Last modified:2016-10-26
Method:SOLUTION NMR
Cite:8-Oxoguanine Affects DNA Backbone Conformation in the EcoRI Recognition Site and Inhibits Its Cleavage by the Enzyme.
Plos One, 11, 2016
1Q3B
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BU of 1q3b by Molmil
Crystal structure of the DNA repair enzyme endonuclease-VIII (Nei) from E. coli: The R252A mutant at 2.05 resolution.
Descriptor: Endonuclease VIII, GLYCEROL, MAGNESIUM ION, ...
Authors:Golan, G, Zharkov, D.O, Feinberg, H, Fernandes, A.S, Zaika, E.I, Kycia, J.H, Grollman, A.P, Shoham, G.
Deposit date:2003-07-29
Release date:2004-08-03
Last modified:2023-08-16
Method:X-RAY DIFFRACTION (2.05 Å)
Cite:Structure of the uncomplexed DNA repair enzyme endonuclease VIII indicates significant interdomain flexibility.
Nucleic Acids Res., 33, 2005
1Q39
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BU of 1q39 by Molmil
Crystal structure of the DNA repair enzyme endonuclease-VIII (Nei) from E. coli: The WT enzyme at 2.8 resolution.
Descriptor: CALCIUM ION, Endonuclease VIII, ZINC ION
Authors:Golan, G, Zharkov, D.O, Feinberg, H, Fernandes, A.S, Zaika, E.I, Kycia, J.H, Grollman, A.P, Shoham, G.
Deposit date:2003-07-29
Release date:2004-08-03
Last modified:2023-08-16
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Structure of the uncomplexed DNA repair enzyme endonuclease VIII indicates significant interdomain flexibility.
Nucleic Acids Res., 33, 2005
1Q3C
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BU of 1q3c by Molmil
Crystal structure of the DNA repair enzyme endonuclease-VIII (Nei) from E. coli: The E2A mutant at 2.3 resolution.
Descriptor: Endonuclease VIII, GLYCEROL, MAGNESIUM ION, ...
Authors:Golan, G, Zharkov, D.O, Feinberg, H, Fernandes, A.S, Zaika, E.I, Kycia, J.H, Grollman, A.P, Shoham, G.
Deposit date:2003-07-29
Release date:2004-08-03
Last modified:2023-08-16
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structure of the uncomplexed DNA repair enzyme endonuclease VIII indicates significant interdomain flexibility.
Nucleic Acids Res., 33, 2005
1KG5
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BU of 1kg5 by Molmil
Crystal structure of the K142Q mutant of E.coli MutY (core fragment)
Descriptor: A/G-specific adenine glycosylase, GLYCEROL, IRON/SULFUR CLUSTER, ...
Authors:Gilboa, R, Kilshtein, A, Zharkov, D.O, Kycia, J.H, Gerchman, S.E, Grollman, A.P, Shoham, G.
Deposit date:2001-11-26
Release date:2002-11-26
Last modified:2023-08-16
Method:X-RAY DIFFRACTION (1.35 Å)
Cite:Analysis of the E.coli MutY DNA glycosylase structure and function by site-directed mutagenesis
To be Published
1KG6
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BU of 1kg6 by Molmil
Crystal structure of the K142R mutant of E.coli MutY (core fragment)
Descriptor: A/G-specific adenine glycosylase, GLYCEROL, IRON/SULFUR CLUSTER, ...
Authors:Gilboa, R, Kilshtein, A, Zharkov, D.O, Kycia, J.H, Gerchman, S.E, Grollman, A.P, Shoham, G.
Deposit date:2001-11-26
Release date:2002-11-26
Last modified:2023-08-16
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Analysis of the E.coli MutY DNA glycosylase structure and function by site-directed mutagenesis
To be Published
1KG4
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BU of 1kg4 by Molmil
Crystal structure of the K142A mutant of E. coli MutY (core fragment)
Descriptor: A/G-specific adenine glycosylase, GLYCEROL, IRON/SULFUR CLUSTER, ...
Authors:Gilboa, R, Kilshtein, A, Zharkov, D.O, Kycia, J.H, Gerchman, S.E, Grollman, A.P, Shoham, G.
Deposit date:2001-11-26
Release date:2002-11-26
Last modified:2023-08-16
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Analysis of the E.coli MutY DNA glycosylase structure and function by site-directed mutagenesis
To be Published
1KG2
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BU of 1kg2 by Molmil
Crystal structure of the core fragment of MutY from E.coli at 1.2A resolution
Descriptor: A/G-specific adenine glycosylase, GLYCEROL, IRON/SULFUR CLUSTER, ...
Authors:Gilboa, R, Kilshtein, A, Zharkov, D.O, Kycia, J.H, Gerchman, S.E, Grollman, A.P, Shoham, G.
Deposit date:2001-11-26
Release date:2002-11-26
Last modified:2023-08-16
Method:X-RAY DIFFRACTION (1.2 Å)
Cite:Analysis of the E.coli MutY DNA glycosylase structure and function by site-directed mutagenesis
To be Published
1KG7
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BU of 1kg7 by Molmil
Crystal Structure of the E161A mutant of E.coli MutY (core fragment)
Descriptor: A/G-specific adenine glycosylase, GLYCEROL, IRON/SULFUR CLUSTER, ...
Authors:Gilboa, R, Kilshtein, A, Zharkov, D.O, Kycia, J.H, Gerchman, S.E, Grollman, A.P, Shoham, G.
Deposit date:2001-11-26
Release date:2002-11-26
Last modified:2023-08-16
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Analysis of the E.coli MutY DNA glycosylase structure and function by site-directed mutagenesis
To be Published
1KG3
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BU of 1kg3 by Molmil
Crystal structure of the core fragment of MutY from E.coli at 1.55A resolution
Descriptor: A/G-specific adenine glycosylase, GLYCEROL, IRON/SULFUR CLUSTER, ...
Authors:Gilboa, R, Kilshtein, A, Zharkov, D.O, Kycia, J.H, Gerchman, S.E, Grollman, A.P, Shoham, G.
Deposit date:2001-11-26
Release date:2002-11-26
Last modified:2023-08-16
Method:X-RAY DIFFRACTION (1.55 Å)
Cite:Analysis of the E.coli MutY DNA glycosylase structure and function by site-directed mutagenesis
To be Published

 

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