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PDB: 81 results
4GRE
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BU of 4gre by Molmil
DNA holliday junction stabilized by iodine halogen bond. I2J Construct of related reference
Descriptor: DNA (5'-D(*CP*CP*GP*AP*TP*AP*CP*CP*GP*G)-3'), DNA (5'-D(*CP*CP*GP*GP*TP*AP*(IOU)P*CP*GP*G)-3')
Authors:Ho, P.S, Carter, M.
Deposit date:2012-08-24
Release date:2013-07-31
Last modified:2024-02-28
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Enthalpy-entropy compensation in biomolecular halogen bonds measured in DNA junctions.
Biochemistry, 52, 2013
4GSI
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BU of 4gsi by Molmil
DNA Holliday junction stabilized by fluorine halogen bond. F2J construct of related reference.
Descriptor: DNA (5'-D(*CP*CP*GP*AP*TP*AP*CP*CP*GP*G)-3'), DNA (5'-D(*CP*CP*GP*GP*TP*AP*(UFP)P*CP*GP*G)-3')
Authors:Ho, P.S, Carter, M.
Deposit date:2012-08-27
Release date:2013-07-31
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (2.38 Å)
Cite:Enthalpy-entropy compensation in biomolecular halogen bonds measured in DNA junctions.
Biochemistry, 52, 2013
4GS2
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BU of 4gs2 by Molmil
DNA Holliday junction stabilized by iodine halogen bond. I1J construct in related reference.
Descriptor: DNA (5'-D(*CP*CP*GP*AP*TP*AP*CP*CP*GP*G)-3'), DNA (5'-D(*CP*CP*GP*GP*TP*AP*(5IU)P*CP*GP*G)-3')
Authors:Ho, P.S, Carter, M.
Deposit date:2012-08-27
Release date:2013-07-31
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Enthalpy-entropy compensation in biomolecular halogen bonds measured in DNA junctions.
Biochemistry, 52, 2013
4GSG
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BU of 4gsg by Molmil
DNA Holliday junction stabilized by chlorine halogen bond. Cl1J construct of related reference.
Descriptor: DNA (5'-D(*CP*CP*GP*AP*TP*AP*CP*CP*GP*G)-3'), DNA (5'-D(*CP*CP*GP*GP*TP*AP*(UCL)P*CP*GP*G)-3')
Authors:Ho, P.S, Carter, M.
Deposit date:2012-08-27
Release date:2013-07-31
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (2 Å)
Cite:Enthalpy-entropy compensation in biomolecular halogen bonds measured in DNA junctions.
Biochemistry, 52, 2013
1VTT
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BU of 1vtt by Molmil
GT Wobble Base-Pairing in Z-DNA at 1.0 Angstrom Atomic Resolution: The Crystal Structure of d(CGCGTG)
Descriptor: DNA (5'-D(*CP*GP*CP*GP*TP*G)-3')
Authors:Ho, P.S, Frederick, C.A, Quigley, G.J, Van Der Marel, G.A, Van Boom, J.H, Wang, A.H.-J, Rich, A.
Deposit date:1988-08-18
Release date:2011-07-13
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1 Å)
Cite:GT Wobble Base-Pairing in Z-DNA at 1.0 Angstrom Atomic Resolution: The Crystal Structure of d(CGCGTG)
Embo J., 4, 1985
1L6B
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BU of 1l6b by Molmil
CRYSTAL STRUCTURE ANALYSIS OF THE ALL DNA HOLLIDAY JUNCTION STRUCTURE OF CCGGTACM5CGG
Descriptor: 5'-D(*CP*CP*GP*GP*TP*AP*CP*(5CM)P*GP*G)-3', CALCIUM ION
Authors:Vargason, J.M, Ho, P.S.
Deposit date:2002-03-08
Release date:2002-08-07
Last modified:2024-02-14
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:The effect of cytosine methylation on the structure and geometry of the Holliday junction: the structure of d(CCGGTACm5CGG) at 1.5 A resolution.
J.Biol.Chem., 277, 2002
3IGT
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BU of 3igt by Molmil
A rare nucleotide base tautomer in the structure of an asymmetric DNA junction
Descriptor: 5'-D(*CP*CP*GP*AP*GP*TP*CP*CP*TP*A)-3', 5'-D(*CP*TP*CP*AP*AP*CP*TP*CP*GP*G)-3', 5'-D(*TP*AP*GP*GP*GP*GP*CP*CP*GP*A)-3', ...
Authors:Khuu, P, Ho, P.S.
Deposit date:2009-07-28
Release date:2009-08-18
Last modified:2024-02-21
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:A rare nucleotide base tautomer in the structure of an asymmetric DNA junction.
Biochemistry, 48, 2009
6NJT
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BU of 6njt by Molmil
Mouse endonuclease G mutant - H97A
Descriptor: CHLORIDE ION, Endonuclease G, mitochondrial, ...
Authors:Vander Zanden, C.M, Ho, E.N, Czarny, R.S, Robertson, A.B, Ho, P.S.
Deposit date:2019-01-04
Release date:2020-01-08
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.07 Å)
Cite:Structural adaptation of vertebrate endonuclease G for 5-hydroxymethylcytosine recognition and function.
Nucleic Acids Res., 48, 2020
6NJU
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BU of 6nju by Molmil
Mouse endonuclease G mutant H97A bound to A-DNA
Descriptor: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, CHLORIDE ION, DNA (5'-D(CCGGCGCCGG)-3'), ...
Authors:Vander Zanden, C.M, Ho, E.N, Czarny, R.S, Robertson, A.B, Ho, P.S.
Deposit date:2019-01-04
Release date:2020-01-08
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.35 Å)
Cite:Structural adaptation of vertebrate endonuclease G for 5-hydroxymethylcytosine recognition and function.
Nucleic Acids Res., 48, 2020
145D
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BU of 145d by Molmil
Structure and thermodynamics of nonalternating C/G base pairs in Z-DNA: the 1.3 angstroms crystal structure of the asymmetric hexanucleotide D(M(5)CGGGM(5) CG)/D(M(5)CGCCM(5)CG)
Descriptor: DNA (5'-D(*(5CM)P*DGP*DGP*DGP*(5CM)P*DG)-3'), DNA (5'-D(*(MCY)P*GP*CP*CP*(5CM)P*G)-3'), DNA (5'-D(*(MCY)P*GP*GP*GP*(5CM)P*G)-3')
Authors:Schroth, G.P, Kagawa, T.F, Shing Ho, P.
Deposit date:1993-11-11
Release date:1994-01-15
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (1.25 Å)
Cite:Structure and thermodynamics of nonalternating C.G base pairs in Z-DNA: the 1.3-A crystal structure of the asymmetric hexanucleotide d(m5CGGGm5CG).d(m5CGCCm5CG).
Biochemistry, 32, 1993
1D40
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BU of 1d40 by Molmil
BASE SPECIFIC BINDING OF COPPER(II) TO Z-DNA: THE 1.3-ANGSTROMS SINGLE CRYSTAL STRUCTURE OF D(M5CGUAM5CG) IN THE PRESENCE OF CUCL2
Descriptor: COPPER (II) CHLORIDE, COPPER (II) ION, DNA (5'-D(*(5CM)P*(CU)GP*UP*AP*(5CM)P*(CU)G)-3')
Authors:Geierstanger, B.H, Kagawa, T.F, Chen, S.-L, Quigley, G.J, Ho, P.S.
Deposit date:1991-05-07
Release date:1992-04-15
Last modified:2024-04-03
Method:X-RAY DIFFRACTION (1.3 Å)
Cite:Base-specific binding of copper(II) to Z-DNA. The 1.3-A single crystal structure of d(m5CGUAm5CG) in the presence of CuCl2.
J.Biol.Chem., 266, 1991
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
3TOK
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BU of 3tok by Molmil
Assaying the energies of biological halogen bonds.
Descriptor: DNA (5'-D(*CP*CP*GP*AP*TP*AP*CP*CP*GP*G)-3'), DNA (5'-D(*CP*CP*GP*GP*TP*AP*TP*CP*GP*G)-3'), SODIUM ION
Authors:Carter, M, Ho, P.S.
Deposit date:2011-09-05
Release date:2012-08-15
Last modified:2023-09-13
Method:X-RAY DIFFRACTION (1.74 Å)
Cite:Assaying the Energies of Biological Halogen Bonds
CRYST.GROWTH DES., 11, 2011
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
1IH2
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BU of 1ih2 by Molmil
Crystal Structure of GGBr5CGBr5CC
Descriptor: 5'-D(*GP*GP*(CBR)P*GP*(CBR)P*C)-3'
Authors:Vargason, J.M, Henderson, K, Ho, P.S.
Deposit date:2001-04-18
Release date:2001-06-18
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:A crystallographic map of the transition from B-DNA to A-DNA.
Proc.Natl.Acad.Sci.USA, 98, 2001
1IH3
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BU of 1ih3 by Molmil
Multi-conformation crystal structure of GGm5CGm5CC
Descriptor: 5'-D(*GP*GP*(5CM)P*GP*(5CM)P*C)-3'
Authors:Vargason, J.M, Henderson, K, Ho, P.S.
Deposit date:2001-04-18
Release date:2001-06-18
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:A crystallographic map of the transition from B-DNA to A-DNA.
Proc.Natl.Acad.Sci.USA, 98, 2001
1IH1
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BU of 1ih1 by Molmil
Crystal Structure of the B-DNA Hexamer GGCGCC with Cobalt Hexamine Resolved to 2.0 Angstroms
Descriptor: 5'-D(*GP*GP*CP*GP*CP*C)-3', COBALT HEXAMMINE(III), MAGNESIUM ION
Authors:Vargason, J.M, Henderson, K, Ho, P.S.
Deposit date:2001-04-18
Release date:2001-06-18
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (2 Å)
Cite:A crystallographic map of the transition from B-DNA to A-DNA.
Proc.Natl.Acad.Sci.USA, 98, 2001
1IH6
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BU of 1ih6 by Molmil
Multi-Conformation Crystal Structure of GGBr5CGCC
Descriptor: 5'-D(*GP*GP*(CBR)P*GP*CP*C)-3'
Authors:Vargason, J.M, Henderson, K, Ho, P.S.
Deposit date:2001-04-18
Release date:2001-06-18
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (1.45 Å)
Cite:A crystallographic map of the transition from B-DNA to A-DNA.
Proc.Natl.Acad.Sci.USA, 98, 2001
1IH4
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BU of 1ih4 by Molmil
Multi-Conformation Crystal Structure of GGm5CGCC
Descriptor: 5'-D(*GP*GP*(5CM)P*GP*CP*C)-3'
Authors:Vargason, J.M, Henderson, K, Ho, P.S.
Deposit date:2001-04-18
Release date:2001-06-18
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:A crystallographic map of the transition from B-DNA to A-DNA.
Proc.Natl.Acad.Sci.USA, 98, 2001
5VBJ
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BU of 5vbj by Molmil
Sulfur as a bromine biomolecular halogen-bond acceptor
Descriptor: CALCIUM ION, DNA (5'-D(*CP*CP*GP*AP*TP*(AS)P*(BRU)P*CP*GP*G)-3')
Authors:Ford, M.C, Ho, P.S.
Deposit date:2017-03-29
Release date:2017-08-09
Last modified:2024-03-06
Method:X-RAY DIFFRACTION (1.944 Å)
Cite:Sulfur as an Acceptor to Bromine in Biomolecular Halogen Bonds.
J Phys Chem Lett, 8, 2017
1S1L
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BU of 1s1l by Molmil
Influence of Groove Interactions on the Formation of DNA Holliday Junctions
Descriptor: 5'-D(*CP*CP*(OIP)*GP*TP*AP*CP*(5CM)P*GP*G)-3'
Authors:Hays, F.A, Jones, Z.J, Ho, P.S.
Deposit date:2004-01-06
Release date:2004-08-31
Last modified:2024-04-03
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Influence of minor groove substituents on the structure of DNA holliday junctions.
Biochemistry, 43, 2004
1S1K
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BU of 1s1k by Molmil
INFLUENCE OF GROOVE INTERACTIONS ON DNA HOLLIDAY JUNCTION FORMATION
Descriptor: 5'-D(*CP*CP*(1AP)P*GP*TP*AP*CP*TP*GP*G)-3', CALCIUM ION, SODIUM ION
Authors:Hays, F.A, Watson, J, Ho, P.S.
Deposit date:2004-01-06
Release date:2004-08-31
Last modified:2023-08-23
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Influence of minor groove substituents on the structure of DNA holliday junctions.
Biochemistry, 43, 2004
1D41
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BU of 1d41 by Molmil
STABILIZATION OF Z-DNA BY DEMETHYLATION OF THYMINE BASES: 1.3 ANGSTROMS SINGLE-CRYSTAL STRUCTURE OF D(M5CGUAM5CG)
Descriptor: DNA (5'-D(*(5CM)P*GP*UP*AP*(5CM)P*G)-3'), MAGNESIUM ION
Authors:Zhou, G, Ho, P.S.
Deposit date:1991-05-07
Release date:1992-04-15
Last modified:2024-04-03
Method:X-RAY DIFFRACTION (1.3 Å)
Cite:Stabilization of Z-DNA by demethylation of thymine bases: 1.3-A single-crystal structure of d(m5CGUAm5CG).
Biochemistry, 29, 1990
1F6C
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BU of 1f6c by Molmil
CRYSTAL STRUCTURE OF THE B-DNA HEXAMER GGCGCC WITH SPERMINE
Descriptor: DNA (5'-D(*GP*GP*CP*GP*CP*C)-3'), SPERMINE
Authors:Vargason, J.M, Eichman, B.F, Ho, P.S.
Deposit date:2000-06-21
Release date:2000-08-28
Last modified:2024-02-07
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:The extended and eccentric E-DNA structure induced by cytosine methylation or bromination.
Nat.Struct.Biol., 7, 2000

 

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