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PDB: 94 results
400D
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BU of 400d by Molmil
THE INTRINSIC STRUCTURE AND STABILITY OF OUT-OF-ALTERNATION BASE PAIRS IN Z-DNA
Descriptor: DNA (5'-D(*(5CM)P*GP*GP*CP*(5CM)P*G)-3')
Authors:Eichman, B.F, Basham, B, Schroth, G.P, Ho, P.S.
Deposit date:1998-05-28
Release date:1998-07-09
Last modified:2024-02-28
Method:X-RAY DIFFRACTION (1.65 Å)
Cite:The intrinsic structure and stability of out-of-alternation base pairs in Z-DNA.
Nucleic Acids Res., 27, 1999
8D2M
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BU of 8d2m by Molmil
Covalent Schiff base complex of YedK C2A and abasic DNA
Descriptor: Abasic site processing protein YedK, DNA (5'-D(*GP*TP*CP*(PED)P*GP*GP*A)-3')
Authors:Eichman, B.F, Paulin, K.A.
Deposit date:2022-05-30
Release date:2023-04-12
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.821 Å)
Cite:The SOS response-associated peptidase (SRAP) domain of YedK catalyzes ring opening of abasic sites and reversal of its DNA-protein cross-link.
J.Biol.Chem., 298, 2022
3DJL
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BU of 3djl by Molmil
Crystal structure of alkylation response protein E. coli AidB
Descriptor: CALCIUM ION, FLAVIN-ADENINE DINUCLEOTIDE, Protein aidB
Authors:Eichman, B.F, Metz, A.H, Bowles, T.
Deposit date:2008-06-23
Release date:2008-09-23
Last modified:2012-03-21
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Structure and DNA binding of alkylation response protein AidB.
Proc.Natl.Acad.Sci.USA, 105, 2008
1PU6
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BU of 1pu6 by Molmil
Crystal structure of H.pylori 3-methyladenine DNA glycosylase (MagIII)
Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, 3-METHYLADENINE DNA GLYCOSYLASE, BETA-MERCAPTOETHANOL, ...
Authors:Eichman, B.F, O'Rourke, E.J, Radicella, J.P, Ellenberger, T.
Deposit date:2003-06-24
Release date:2003-10-07
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.64 Å)
Cite:Crystal structures of 3-methyladenine DNA glycosylase MagIII and the recognition of alkylated bases
Embo J., 22, 2003
1PU7
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BU of 1pu7 by Molmil
Crystal structure of H.pylori 3-methyladenine DNA glycosylase (MagIII) bound to 3,9-dimethyladenine
Descriptor: 3-METHYLADENINE DNA GLYCOSYLASE, 6-AMINO-3,9-DIMETHYL-9H-PURIN-3-IUM, BETA-MERCAPTOETHANOL
Authors:Eichman, B.F, O'Rourke, E.J, Radicella, J.P, Ellenberger, T.
Deposit date:2003-06-24
Release date:2003-10-07
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (1.93 Å)
Cite:Crystal structures of 3-methyladenine DNA glycosylase MagIII and the recognition of alkylated bases
Embo J., 22, 2003
1PU8
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BU of 1pu8 by Molmil
Crystal structure of H.pylori 3-methyladenine DNA glycosylase (MagIII) bound to 1,N6-ethenoadenine
Descriptor: 3-METHYLADENINE DNA GLYCOSYLASE, 3H-IMIDAZO[2,1-I]PURINE, BETA-MERCAPTOETHANOL
Authors:Eichman, B.F, O'Rourke, E.J, Radicella, J.P, Ellenberger, T.
Deposit date:2003-06-24
Release date:2003-10-07
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (2.13 Å)
Cite:Crystal structures of 3-methyladenine DNA glycosylase MagIII and the recognition of alkylated bases
Embo J., 22, 2003
6M9M
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BU of 6m9m by Molmil
Streptococcus mutans AlkD2 bound to inosine-5'-monophosphate
Descriptor: AlkD2, CHLORIDE ION, INOSINIC ACID
Authors:Eichman, B.F, Shi, R.
Deposit date:2018-08-23
Release date:2018-10-10
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (1.401 Å)
Cite:Structural Biology of the HEAT-Like Repeat Family of DNA Glycosylases.
Bioessays, 40, 2018
6NUA
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BU of 6nua by Molmil
DNA-protein crosslink between E. coli YedK and ssDNA containing an abasic site
Descriptor: DNA (5'-D(*GP*TP*CP*(PED)P*GP*GP*A)-3'), SOS response-associated peptidase YedK
Authors:Eichman, B.F, Amidon, K.M.
Deposit date:2019-01-31
Release date:2019-06-26
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (1.64 Å)
Cite:Protection of abasic sites during DNA replication by a stable thiazolidine protein-DNA cross-link.
Nat.Struct.Mol.Biol., 26, 2019
6NUH
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BU of 6nuh by Molmil
Non-covalent DNA-protein complex between E. coli YedK and ssDNA containing an abasic site analog
Descriptor: 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, DNA (5'-D(*GP*TP*CP*(PDI)P*GP*GP*A)-3'), SOS response-associated peptidase YedK
Authors:Eichman, B.F, Amidon, K.M.
Deposit date:2019-02-01
Release date:2019-06-26
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (1.594 Å)
Cite:Protection of abasic sites during DNA replication by a stable thiazolidine protein-DNA cross-link.
Nat.Struct.Mol.Biol., 26, 2019
1FHY
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BU of 1fhy by Molmil
PSORALEN CROSS-LINKED D(CCGCTAGCGG) FORMS HOLLIDAY JUNCTION
Descriptor: 4'-HYDROXYMETHYL-4,5',8-TRIMETHYLPSORALEN, CALCIUM ION, DNA (5'-D(*CP*CP*GP*CP*TP*AP*GP*CP*GP*G)-3')
Authors:Eichman, B.F, Mooers, B.H.M, Alberti, M, Hearst, J.E, Ho, P.S.
Deposit date:2000-08-02
Release date:2001-04-21
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:The crystal structures of psoralen cross-linked DNAs: drug-dependent formation of Holliday junctions.
J.Mol.Biol., 308, 2001
1FHZ
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BU of 1fhz by Molmil
PSORALEN CROSS-LINKED D(CCGGTACCGG) FORMS HOLLIDAY JUNCTION
Descriptor: 4'-HYDROXYMETHYL-4,5',8-TRIMETHYLPSORALEN, DNA (5'-D(*CP*CP*GP*GP*TP*AP*CP*CP*GP*G)-3')
Authors:Eichman, B.F, Mooers, B.H.M, Alberti, M, Hearst, J.E, Ho, P.S.
Deposit date:2000-08-02
Release date:2001-04-21
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:The crystal structures of psoralen cross-linked DNAs: drug-dependent formation of Holliday junctions.
J.Mol.Biol., 308, 2001
1DCV
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BU of 1dcv by Molmil
B-DNA DECAMER WITH CENTRAL TA DINUCLEOTIDE
Descriptor: DNA (5'-D(*CP*CP*GP*CP*TP*AP*GP*CP*GP*G)-3')
Authors:Eichman, B.F, Vargason, J.M, Mooers, B.H.M, Ho, P.S.
Deposit date:1999-11-05
Release date:2000-04-17
Last modified:2024-04-03
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:The Holliday junction in an inverted repeat DNA sequence: sequence effects on the structure of four-way junctions.
Proc.Natl.Acad.Sci.USA, 97, 2000
1DCW
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BU of 1dcw by Molmil
STRUCTURE OF A FOUR-WAY JUNCTION IN AN INVERTED REPEAT SEQUENCE.
Descriptor: DNA (5'-D(*CP*CP*GP*GP*TP*AP*CP*CP*GP*G)-3'), SODIUM ION
Authors:Eichman, B.F, Vargason, J.M, Mooers, B.H.M, Ho, P.S.
Deposit date:1999-11-05
Release date:2000-04-17
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:The Holliday junction in an inverted repeat DNA sequence: sequence effects on the structure of four-way junctions.
Proc.Natl.Acad.Sci.USA, 97, 2000
5KUB
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BU of 5kub by Molmil
Bacillus cereus DNA glycosylase AlkD bound to 7-methylguanine nucleobase and DNA containing an oxocarbenium-intermediate analog
Descriptor: 2-amino-7-methyl-1,7-dihydro-6H-purin-6-one, DNA (5'-D(*CP*CP*CP*GP*AP*(NRI)P*AP*GP*TP*CP*CP*G)-3'), DNA (5'-D(*CP*GP*GP*AP*CP*TP*CP*TP*CP*GP*GP*G)-3'), ...
Authors:Mullins, E.A, Eichman, B.F.
Deposit date:2016-07-13
Release date:2016-09-14
Last modified:2023-10-04
Method:X-RAY DIFFRACTION (1.73 Å)
Cite:A Catalytic Role for C-H/ pi Interactions in Base Excision Repair by Bacillus cereus DNA Glycosylase AlkD.
J.Am.Chem.Soc., 138, 2016
4X8Q
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BU of 4x8q by Molmil
X-ray crystal structure of AlkD2 from Streptococcus mutans
Descriptor: CHLORIDE ION, GLYCEROL, PHOSPHATE ION, ...
Authors:Mullins, E.A, Shi, R, Eichman, B.F.
Deposit date:2014-12-10
Release date:2015-05-27
Last modified:2023-09-27
Method:X-RAY DIFFRACTION (1.729 Å)
Cite:A New Family of HEAT-Like Repeat Proteins Lacking a Critical Substrate Recognition Motif Present in Related DNA Glycosylases.
Plos One, 10, 2015
3S6I
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BU of 3s6i by Molmil
Schizosaccaromyces pombe 3-methyladenine DNA glycosylase (Mag1) in complex with abasic-DNA.
Descriptor: (5'-D(*AP*AP*GP*AP*CP*TP*TP*GP*GP*AP*C)-3'), (5'-D(*TP*GP*TP*CP*CP*AP*(3DR)P*GP*TP*CP*T)-3'), DNA-3-methyladenine glycosylase 1, ...
Authors:Adhikary, S, Eichman, B.F.
Deposit date:2011-05-25
Release date:2011-12-14
Last modified:2024-02-28
Method:X-RAY DIFFRACTION (2.28 Å)
Cite:Analysis of substrate specificity of Schizosaccharomyces pombe Mag1 alkylpurine DNA glycosylase.
Embo Rep., 12, 2011
2B2B
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BU of 2b2b by Molmil
Structural distortions in psoralen cross-linked DNA
Descriptor: 4'-HYDROXYMETHYL-4,5',8-TRIMETHYLPSORALEN, 5'-D(*CP*CP*GP*CP*TP*AP*GP*CP*GP*G)-3', CALCIUM ION, ...
Authors:Hays, F.A, Yonggang, H, Eichman, B.F, Kong, W, Hearst, J, Ho, P.S.
Deposit date:2005-09-19
Release date:2006-10-03
Last modified:2023-08-23
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Structural distortions in psoralen cross-linked DNA
To be Published
8UCU
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BU of 8ucu by Molmil
Partial DNA termination subcomplex of Xenopus laevis DNA polymerase alpha-primase
Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA polymerase alpha catalytic subunit, DNA template, ...
Authors:Mullins, E.A, Chazin, W.J, Eichman, B.F.
Deposit date:2023-09-27
Release date:2023-10-11
Last modified:2024-05-29
Method:ELECTRON MICROSCOPY (2.85 Å)
Cite:A mechanistic model of primer synthesis from catalytic structures of DNA polymerase alpha-primase.
Nat.Struct.Mol.Biol., 31, 2024
8UCW
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BU of 8ucw by Molmil
Complete DNA termination subcomplex 2 of Xenopus laevis DNA polymerase alpha-primase
Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA polymerase alpha catalytic subunit, DNA template, ...
Authors:Mullins, E.A, Chazin, W.C, Eichman, B.F.
Deposit date:2023-09-27
Release date:2023-10-11
Last modified:2024-05-29
Method:ELECTRON MICROSCOPY (3.64 Å)
Cite:A mechanistic model of primer synthesis from catalytic structures of DNA polymerase alpha-primase.
Nat.Struct.Mol.Biol., 31, 2024
8UCV
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BU of 8ucv by Molmil
Complete DNA termination subcomplex 1 of Xenopus laevis DNA polymerase alpha-primase
Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA polymerase alpha catalytic subunit, DNA primase large subunit, ...
Authors:Mullins, E.A, Chazin, W.C, Eichman, B.F.
Deposit date:2023-09-27
Release date:2023-10-11
Last modified:2024-05-29
Method:ELECTRON MICROSCOPY (3.81 Å)
Cite:A mechanistic model of primer synthesis from catalytic structures of DNA polymerase alpha-primase.
Nat.Struct.Mol.Biol., 31, 2024
8EFG
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BU of 8efg by Molmil
Crystal structure of human TATDN1 bound to dAMP and two zinc ions
Descriptor: (2R,3S,5R)-5-(6-amino-9H-purin-9-yl)-tetrahydro-2-(hydroxymethyl)furan-3-ol, 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE, ADENINE, ...
Authors:Dorival, J, Eichman, B.F.
Deposit date:2022-09-08
Release date:2023-02-22
Last modified:2024-05-29
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Human and bacterial TatD enzymes exhibit apurinic/apyrimidinic (AP) endonuclease activity.
Nucleic Acids Res., 51, 2023
8G9N
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BU of 8g9n by Molmil
Partial DNA elongation subcomplex of Xenopus laevis DNA polymerase alpha-primase
Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA polymerase alpha catalytic subunit, DNA template, ...
Authors:Mullins, E.A, Durie, C.L, Ohi, M.D, Chazin, W.J, Eichman, B.F.
Deposit date:2023-02-21
Release date:2023-04-12
Last modified:2024-05-29
Method:ELECTRON MICROSCOPY (3.5 Å)
Cite:A mechanistic model of primer synthesis from catalytic structures of DNA polymerase alpha-primase.
Nat.Struct.Mol.Biol., 31, 2024
8G9O
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BU of 8g9o by Molmil
Complete DNA elongation subcomplex of Xenopus laevis DNA polymerase alpha-primase
Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA polymerase alpha catalytic subunit, DNA primase large subunit, ...
Authors:Mullins, E.A, Durie, C.L, Ohi, M.D, Chazin, W.J, Eichman, B.F.
Deposit date:2023-02-21
Release date:2023-04-12
Last modified:2024-05-29
Method:ELECTRON MICROSCOPY (4.4 Å)
Cite:A mechanistic model of primer synthesis from catalytic structures of DNA polymerase alpha-primase.
Nat.Struct.Mol.Biol., 31, 2024
8G99
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BU of 8g99 by Molmil
Partial auto-inhibitory complex of Xenopus laevis DNA polymerase alpha-primase
Descriptor: DNA polymerase alpha catalytic subunit, DNA polymerase alpha subunit B, DNA primase large subunit, ...
Authors:Mullins, E.A, Chazin, W.J, Eichman, B.F.
Deposit date:2023-02-21
Release date:2023-04-12
Last modified:2024-05-29
Method:ELECTRON MICROSCOPY (2.8 Å)
Cite:A mechanistic model of primer synthesis from catalytic structures of DNA polymerase alpha-primase.
Nat.Struct.Mol.Biol., 31, 2024
8G9F
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BU of 8g9f by Molmil
Complete auto-inhibitory complex of Xenopus laevis DNA polymerase alpha-primase
Descriptor: DNA polymerase alpha catalytic subunit, DNA polymerase alpha subunit B, DNA primase, ...
Authors:Mullins, E.A, Chazin, W.J, Eichman, B.F.
Deposit date:2023-02-21
Release date:2023-04-12
Last modified:2024-05-29
Method:ELECTRON MICROSCOPY (3.2 Å)
Cite:A mechanistic model of primer synthesis from catalytic structures of DNA polymerase alpha-primase.
Nat.Struct.Mol.Biol., 31, 2024

 

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