6W4I
| APE1 Y269A product complex with abasic DNA | Descriptor: | DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3'), DNA (5'-D(P*(3DR)P*CP*GP*AP*CP*GP*GP*AP*TP*CP*C)-3'), DNA (5'-D(P*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, Hoitsma, N.M. | Deposit date: | 2020-03-10 | Release date: | 2020-06-17 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | AP-endonuclease 1 sculpts DNA through an anchoring tyrosine residue on the DNA intercalating loop. Nucleic Acids Res., 48, 2020
|
|
4C1R
| Bacteroides thetaiotaomicron VPI-5482 mannosyl-6-phosphatase Bt3783 | Descriptor: | 1,2-ETHANEDIOL, MAGNESIUM ION, MANNOSYL-6-PHOSPHATASE | Authors: | Cuskin, F, Lowe, E.C, Zhu, Y, Temple, M, Thompson, A.J, Cartmell, A, Piens, K, Bracke, D, Vervecken, W, Munoz-Munoz, J.L, Suits, M.D.L, Boraston, A.B, Williams, S.J, Davies, G.J, Abbott, W.D, Martens, E.C, Gilbert, H.J. | Deposit date: | 2013-08-13 | Release date: | 2013-11-13 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Human Gut Bacteroidetes Can Utilize Yeast Mannan Through a Selfish Mechanism. Nature, 517, 2015
|
|
6LPM
| |
6MAL
| |
6MKM
| Crystallographic solvent mapping analysis of DMSO/Tris bound to APE1 | Descriptor: | 1,2-ETHANEDIOL, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, DIMETHYL SULFOXIDE, ... | Authors: | Georgiadis, M.M, He, H, Chen, Q. | Deposit date: | 2018-09-25 | Release date: | 2019-01-30 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.673 Å) | Cite: | Discovery of Macrocyclic Inhibitors of Apurinic/Apyrimidinic Endonuclease 1. J. Med. Chem., 62, 2019
|
|
6MK3
| Crystallographic solvent mapping analysis of DMSO bound to APE1 | Descriptor: | 1,2-ETHANEDIOL, DIMETHYL SULFOXIDE, DNA-(apurinic or apyrimidinic site) lyase | Authors: | Georgiadis, M.M, He, H, Chen, Q. | Deposit date: | 2018-09-24 | Release date: | 2019-01-30 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.478 Å) | Cite: | Discovery of Macrocyclic Inhibitors of Apurinic/Apyrimidinic Endonuclease 1. J. Med. Chem., 62, 2019
|
|
6MKO
| |
6MKK
| Crystallographic solvent mapping analysis of DMSO/Mg bound to APE1 | Descriptor: | 1,2-ETHANEDIOL, DIMETHYL SULFOXIDE, DNA-(apurinic or apyrimidinic site) lyase, ... | Authors: | Georgiadis, M.M, He, H, Chen, Q. | Deposit date: | 2018-09-25 | Release date: | 2019-01-30 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.442 Å) | Cite: | Discovery of Macrocyclic Inhibitors of Apurinic/Apyrimidinic Endonuclease 1. J. Med. Chem., 62, 2019
|
|
4F1R
| |
4F1H
| Crystal structure of TDP2 from Danio rerio complexed with a single strand DNA | Descriptor: | DNA (5'-D(P*TP*GP*CP*AP*G)-3'), GLYCEROL, MAGNESIUM ION, ... | Authors: | Shi, K, Kurahashi, K, Aihara, H. | Deposit date: | 2012-05-06 | Release date: | 2012-10-31 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (1.662 Å) | Cite: | Structural basis for recognition of 5'-phosphotyrosine adducts by Tdp2. Nat.Struct.Mol.Biol., 19, 2012
|
|
6NF0
| Nocturnin with bound NADPH substrate | Descriptor: | CALCIUM ION, NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, Nocturnin | Authors: | Estrella, M.A, Du, J, Korennykh, A. | Deposit date: | 2018-12-18 | Release date: | 2019-05-01 | Last modified: | 2023-10-11 | Method: | X-RAY DIFFRACTION (2.7 Å) | Cite: | The metabolites NADP+and NADPH are the targets of the circadian protein Nocturnin (Curled). Nat Commun, 10, 2019
|
|
4FPV
| Crystal structure of D. rerio TDP2 complexed with single strand DNA product | Descriptor: | DNA (5'-D(P*TP*GP*CP*AP*G)-3'), GLYCEROL, MAGNESIUM ION, ... | Authors: | Shi, K, Kurahashi, K, Aihara, H. | Deposit date: | 2012-06-22 | Release date: | 2012-10-31 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.73 Å) | Cite: | Structural basis for recognition of 5'-phosphotyrosine adducts by Tdp2. Nat.Struct.Mol.Biol., 19, 2012
|
|
4FVA
| Crystal structure of truncated Caenorhabditis elegans TDP2 | Descriptor: | 1,2-ETHANEDIOL, 5'-tyrosyl-DNA phosphodiesterase, MAGNESIUM ION, ... | Authors: | Shi, K, Kurahashi, K, Aihara, H. | Deposit date: | 2012-06-29 | Release date: | 2012-10-31 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (2.07 Å) | Cite: | Structural basis for recognition of 5'-phosphotyrosine adducts by Tdp2. Nat.Struct.Mol.Biol., 19, 2012
|
|
4GZ1
| |
4GYZ
| Mus Musculus Tdp2 Bound to dAMP and Mg2+ | Descriptor: | 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE, CHLORIDE ION, MAGNESIUM ION, ... | Authors: | Schellenberg, M.J, Williams, R.S. | Deposit date: | 2012-09-05 | Release date: | 2012-10-31 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (2.556 Å) | Cite: | Mechanism of repair of 5'-topoisomerase II-DNA adducts by mammalian tyrosyl-DNA phosphodiesterase 2. Nat.Struct.Mol.Biol., 19, 2012
|
|
4GZ0
| |
3W2X
| |
3W2Y
| |
4B5G
| Substrate bound Neisseria AP endonuclease in absence of metal ions (crystal form 2) | Descriptor: | 5'-D(*CP*GP*AP*TP*GP*GP*GP*TP*AP*GP*CP)-3', 5'-D(*GP*CP*TP*AP*CP*(3DR)P*CP*AP*TP*CP*GP)-3', EXODEOXYRIBONUCLEASE | Authors: | Lu, D, Silhan, J, MacDonald, J.T, Carpenter, E.P, Jensen, K, Tang, C.M, Baldwin, G.S, Freemont, P.S. | Deposit date: | 2012-08-03 | Release date: | 2012-10-17 | Last modified: | 2024-05-08 | Method: | X-RAY DIFFRACTION (2.75 Å) | Cite: | Structural basis for the recognition and cleavage of abasic DNA in Neisseria meningitidis. Proc. Natl. Acad. Sci. U.S.A., 109, 2012
|
|
4AWN
| Structure of recombinant human DNase I (rhDNaseI) in complex with Magnesium and Phosphate. | Descriptor: | 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... | Authors: | Parsiegla, G, Noguere, C, Santell, L, Lazarus, R.A, Bourne, Y. | Deposit date: | 2012-06-04 | Release date: | 2013-01-09 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (1.95 Å) | Cite: | The Structure of Human DNase I Bound to Magnesium and Phosphate Ions Points to a Catalytic Mechanism Common to Members of the DNase I-Like Superfamily. Biochemistry, 51, 2012
|
|
4B5J
| Neisseria AP endonuclease bound to the substrate with an orphan Adenine base | Descriptor: | 5'-D(*CP*GP*AP*TP*GP*AP*GP*TP*AP*GP*CP)-3', 5'-D(*GP*CP*TP*AP*CP*(3DR)P*CP*AP*TP*CP*GP)-3', PUTATIVE EXODEOXYRIBONUCLEASE | Authors: | Lu, D, Silhan, J, MacDonald, J.T, Carpenter, E.P, Jensen, K, Tang, C.M, Baldwin, G.S, Freemont, P.S. | Deposit date: | 2012-08-03 | Release date: | 2012-10-17 | Last modified: | 2024-05-08 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Structural basis for the recognition and cleavage of abasic DNA in Neisseria meningitidis. Proc. Natl. Acad. Sci. U.S.A., 109, 2012
|
|
4B5H
| Substate bound inactive mutant of Neisseria AP endonuclease in presence of metal ions | Descriptor: | 5'-D(*CP*GP*AP*TP*GP*GP*GP*TP*AP*GP*CP)-3', 5'-D(*GP*CP*TP*AP*CP*3DRP*CP*AP*TP*CP*GP)-3', MANGANESE (II) ION, ... | Authors: | Lu, D, Silhan, J, MacDonald, J.T, Carpenter, E.P, Jensen, K, Tang, C.M, Baldwin, G.S, Freemont, P.S. | Deposit date: | 2012-08-03 | Release date: | 2012-10-17 | Last modified: | 2024-05-08 | Method: | X-RAY DIFFRACTION (3.05 Å) | Cite: | Structural basis for the recognition and cleavage of abasic DNA in Neisseria meningitidis. Proc. Natl. Acad. Sci. U.S.A., 109, 2012
|
|
4B5M
| Neisseria AP endonuclease bound to the substrate with a cytosine orphan base | Descriptor: | 5'-D(*3DRP*CP*AP*TP*CP*GP)-3', 5'-D(*CP*GP*AP*TP*GP*CP*GP*TP*AP*GP*CP)-3', 5'-D(*GP*CP*TP*AP*CP)-3', ... | Authors: | Lu, D, Silhan, J, MacDonald, J.T, Carpenter, E.P, Jensen, K, Tang, C.M, Baldwin, G.S, Freemont, P.S. | Deposit date: | 2012-08-06 | Release date: | 2012-10-17 | Last modified: | 2024-05-08 | Method: | X-RAY DIFFRACTION (2.758 Å) | Cite: | Structural basis for the recognition and cleavage of abasic DNA in Neisseria meningitidis. Proc. Natl. Acad. Sci. U.S.A., 109, 2012
|
|
4B5F
| Substrate bound Neisseria AP endonuclease in absence of metal ions (crystal form 1) | Descriptor: | 5'-D(*CP*GP*AP*TP*CP*GP*GP*TP*AP*GP*CP)-3', 5'-D(*GP*CP*TP*AP*CP*3DRP*GP*AP*TP*CP*GP)-3', PUTATIVE EXODEOXYRIBONUCLEASE | Authors: | Lu, D, Silhan, J, MacDonald, J.T, Carpenter, E.P, Jensen, K, Tang, C.M, Baldwin, G.S, Freemont, P.S. | Deposit date: | 2012-08-03 | Release date: | 2012-10-17 | Last modified: | 2024-05-08 | Method: | X-RAY DIFFRACTION (2.005 Å) | Cite: | Structural basis for the recognition and cleavage of abasic DNA in Neisseria meningitidis. Proc. Natl. Acad. Sci. U.S.A., 109, 2012
|
|
4B5I
| Product complex of Neisseria AP endonuclease in presence of metal ions | Descriptor: | 5'-D(*3DRP*CP*AP*TP*CP*GP)-3', 5'-D(*CP*GP*AP*TP*GP*GP*GP*TP*AP*GP*CP)-3', 5'-D(*GP*CP*TP*AP*CP)-3', ... | Authors: | Lu, D, Silhan, J, MacDonald, J.T, Carpenter, E.P, Jensen, K, Tang, C.M, Baldwin, G.S, Freemont, P.S. | Deposit date: | 2012-08-03 | Release date: | 2012-10-17 | Last modified: | 2024-05-08 | Method: | X-RAY DIFFRACTION (2.555 Å) | Cite: | Structural basis for the recognition and cleavage of abasic DNA in Neisseria meningitidis. Proc. Natl. Acad. Sci. U.S.A., 109, 2012
|
|