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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Keywords HAS EXACT PHRASE "DNA"

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Search Summary

This query matches 12,918 Structures.

Refinements

Structure Determination Methodology

experimental (12,918)

Scientific Name of Source Organism

	Homo sapiens (3,802)
	synthetic construct (3,443)
	Escherichia coli (716)
	Mus musculus (477)
	Escherichia coli K-12 (398)
	Saccharomyces cerevisiae (321)
	Xenopus laevis (255)
	Geobacillus stearothermophilus (192)
	Saccharomyces cerevisiae S288C (185)
	Saccharolobus solfataricus P2 (124)

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Taxonomy

	Eukaryota (5,539)
	Bacteria (3,642)
	other sequences (3,475)
	Archaea (569)
	Duplodnaviria (445)
	Riboviria (286)
	unclassified sequences (126)
	Monodnaviria (110)
	Varidnaviria (96)
	Eukaryota (eukaryotes) (28)

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Experimental Method

	X-RAY DIFFRACTION (9,765)
	ELECTRON MICROSCOPY (1,630)
	SOLUTION NMR (1,516)
	NEUTRON DIFFRACTION (7)
	SOLID-STATE NMR (3)
	SOLUTION SCATTERING (2)
	ELECTRON CRYSTALLOGRAPHY (1)
	FIBER DIFFRACTION (1)

Polymer Entity Type

	Protein (10,238)
	DNA (9,788)
	RNA (804)
	NA-hybrid (195)

Refinement Resolution (Å)

	0.5 - 1.0 (51)
	1.0 - 1.5 (553)
	1.5 - 2.0 (2,529)
	2.0 - 2.5 (2,849)
	2.5 - 3.0 (2,563)
	3.0 - 3.5 (1,630)
	3.5 - 4.0 (568)
	4.0 - 4.5 (290)
	> 4.5 (370)

Release Date

	1980 - 1984 (8)
	1985 - 1989 (23)
	1990 - 1994 (234)
	1995 - 1999 (896)
	2000 - 2004 (1,108)
	2005 - 2009 (1,383)
	2010 - 2014 (2,206)
	2015 - 2019 (2,921)
	2020 - 2024 (3,917)
	2025 - 2029 (222)

Enzyme Classification Name

	Transferases (2,812)
	Hydrolases (2,139)
	Lyases (818)
	Isomerases (280)
	Oxidoreductases (102)
	Ligases (84)
	Translocases (2)

Symmetry Type

	Asymmetric (6,961)
	Cyclic (3,068)
	Dihedral (229)
	Helical (78)
	Tetrahedral (46)
	Icosahedral (17)
	Octahedral (5)

SCOP Classification

	All alpha proteins (1,673)
	Alpha and beta proteins (a+b) (794)
	Alpha and beta proteins (a/b) (671)
	All beta proteins (504)
	Artifacts (662)
	Multi-domain proteins (alpha and beta) (407)
	Small proteins (202)
	Coiled coil proteins (38)
	Low resolution protein structures (10)
	Peptides (18)

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AllSelected

1 to 25 of 12,918 Structures

Page 1 of 517

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101D \| pdb_0000101d	Download File View File

REFINEMENT OF NETROPSIN BOUND TO DNA: BIAS AND FEEDBACK IN ELECTRON DENSITY MAP INTERPRETATION

Goodsell, D.S., Kopka, M.L., Dickerson, R.E.

(1995) Biochemistry 34: 4983-4993

Released	1995-02-27
Method	X-RAY DIFFRACTION 2.25 Å
Macromolecule	DNA (5'-D(CPGPCPGPAPAPTPTP(CBR)PGPCPG)-3') (nucleic acid)
Unique Ligands	MG, NT

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102D \| pdb_0000102d	Download File View File

SEQUENCE-DEPENDENT DRUG BINDING TO THE MINOR GROOVE OF DNA: THE CRYSTAL STRUCTURE OF THE DNA DODECAMER D(CGCAAATTTGCG)2 COMPLEXED WITH PROPAMIDINE

Nunn, C.M., Neidle, S.

(1995) J Med Chem 38: 2317-2325

Released	1995-02-07
Method	X-RAY DIFFRACTION 2.2 Å
Macromolecule	DNA (5'-D(CPGPCPAPAPAPTPTPTPGPCPG)-3') (nucleic acid)
Unique Ligands	TNT

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103D \| pdb_0000103d	Download File View File

THE UNUSUAL STRUCTURE OF THE HUMAN CENTROMERE (GGA)2 MOTIF: UNPAIRED GUANOSINE RESIDUES STACKED BETWEEN SHEARED G(DOT)A PAIRS

Chou, S.-H., Zhu, L., Reid, B.R.

(1994) J Mol Biology 244: 259-268

Released	1995-03-31
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(GPTPGPGPAPAPTPGPGPAPAPC)-3') (nucleic acid)

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105D \| pdb_0000105d	Download File View File

SOLUTION STRUCTURES OF THE I-MOTIF TETRAMERS OF D(TCC), D(5MCCT) AND D(T5MCC). NOVEL NOE CONNECTIONS BETWEEN AMINO PROTONS AND SUGAR PROTONS

Leroy, J.-L., Gueron, M.

(1995) Structure 3: 101-120

Released	1995-02-07
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(TPCP*C)-3') (nucleic acid)

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106D \| pdb_0000106d	Download File View File

Solution structures of the i-motif tetramers of D(TCC), D(5MCCT) and D(T5MCC). Novel NOE connections between amino protons and sugar protons

Leroy, J.-L., Gueron, M.

(1995) Structure 3: 101-120

Released	1995-02-07
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(MCYPCP*T)-3') (nucleic acid)

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107D \| pdb_0000107d	Download File View File

SOLUTION STRUCTURE OF THE COVALENT DUOCARMYCIN A-DNA DUPLEX COMPLEX

Lin, C.H., Patel, D.J.

(1995) J Mol Biology 248: 162-179

Released	1995-05-08
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(CPCPTPTPTPTPC)-3') (nucleic acid) DNA (5'-D(GPAPAPAPAPGPG)-3') (nucleic acid)
Unique Ligands	DUO

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108D \| pdb_0000108d	Download File View File

THE SOLUTION STRUCTURE OF A DNA COMPLEX WITH THE FLUORESCENT BIS INTERCALATOR TOTO DETERMINED BY NMR SPECTROSCOPY

Spielmann, H.P., Wemmer, D.E., Jacobsen, J.P.

(1995) Biochemistry 34: 8542-8553

Released	1995-06-03
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(CPGPCPTPAPGPCPG)-3') (nucleic acid)
Unique Ligands	TOT

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109D \| pdb_0000109d	Download File View File

VARIABILITY IN DNA MINOR GROOVE WIDTH RECOGNISED BY LIGAND BINDING: THE CRYSTAL STRUCTURE OF A BIS-BENZIMIDAZOLE COMPOUND BOUND TO THE DNA DUPLEX D(CGCGAATTCGCG)2

Czarny, A., Boykin, D.W., Wood, A.A., Nunn, C.M., Neidle, S., Zhao, M., Wilson, W.D.

(1995) Nucleic Acids Res 23: 3678-3684

Released	1995-05-08
Method	X-RAY DIFFRACTION 2 Å
Macromolecule	DNA (5'-D(CPGPCPGPAPAPTPTPCPGPCPG)-3') (nucleic acid)
Unique Ligands	IBB, MG

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110D \| pdb_0000110d	Download File View File

ANTHRACYCLINE-DNA INTERACTIONS AT UNFAVOURABLE BASE BASE-PAIR TRIPLET-BINDING SITES: STRUCTURES OF D(CGGCCG)/DAUNOMYCIN AND D(TGGCCA)/ADRIAMYCIN COMPL

Leonard, G.A., Hambley, T.W., McAuley-Hecht, K., Brown, T., Hunter, W.N.

(1993) Acta Crystallogr D Biol Crystallogr 49: 458-467

Released	1993-04-15
Method	X-RAY DIFFRACTION 1.9 Å
Macromolecule	DNA (5'-D(CPGPGPCPCPG)-3') (nucleic acid)
Unique Ligands	DM1

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111D \| pdb_0000111d	Download File View File

CRYSTAL STRUCTURE AND STABILITY OF A DNA DUPLEX CONTAINING A(ANTI).G(SYN) BASE-PAIRS

Brown, T., Leonard, G.A., Booth, E.D., Chambers, J.

(1989) J Mol Biology 207: 455-457

Released	1993-07-15
Method	X-RAY DIFFRACTION 2.25 Å
Macromolecule	DNA (5'-D(CPGPCPAPAPAPTPTPGPGPCPG)-3') (nucleic acid)

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112D \| pdb_0000112d	Download File View File

MOLECULAR STRUCTURE OF THE G.A BASE PAIR IN DNA AND ITS IMPLICATIONS FOR THE MECHANISM OF TRANSVERSION MUTATIONS

Brown, T., Hunter, W.N., Kneale, G., Kennard, O.

(1986) Proc Natl Acad Sci U S A 83: 2402-2406

Released	1993-07-15
Method	X-RAY DIFFRACTION 2.5 Å
Macromolecule	DNA (5'-D(CPGPCPGPAPAPTPTPAPGPCPG)-3') (nucleic acid)

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113D \| pdb_0000113d	Download File View File

THE STRUCTURE OF GUANOSINE-THYMIDINE MISMATCHES IN B-DNA AT 2.5 ANGSTROMS RESOLUTION

Hunter, W.N., Brown, T., Kneale, G., Anand, N.N., Rabinovich, D., Kennard, O.

(1987) J Biological Chem 262: 9962-9970

Released	1993-07-15
Method	X-RAY DIFFRACTION 2.5 Å
Macromolecule	DNA (5'-D(CPGPCPGPAPAPTPTPTPGPCPG)-3') (nucleic acid)

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114D \| pdb_0000114d	Download File View File

INOSINE-ADENINE BASE PAIRS IN A B-DNA DUPLEX

Corfield, P.W.R., Hunter, W.N., Brown, T., Robinson, P., Kennard, O.

(1987) Nucleic Acids Res 15: 7935-7949

Released	1993-07-15
Method	X-RAY DIFFRACTION 2.5 Å
Macromolecule	DNA (5'-D(CPGPCPIPAPAPTPTPAPGPCPG)-3') (nucleic acid)

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115D \| pdb_0000115d	Download File View File

ORDERED WATER STRUCTURE IN AN A-DNA OCTAMER AT 1.7 ANGSTROMS RESOLUTION

Kennard, O., Cruse, W.B.T., Nachman, J., Prange, T., Shakked, Z., Rabinovich, D.

(1986) J Biomol Struct Dyn 3: 623-647

Released	1993-07-15
Method	X-RAY DIFFRACTION 1.7 Å
Macromolecule	DNA (5'-D(GPGP(BRU)PAP(BRU)PAPCPC)-3') (nucleic acid)

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116D \| pdb_0000116d	Download File View File

CRYSTAL AND MOLECULAR STRUCTURE OF THE A-DNA DODECAMER D(CCGTACGTACGG): CHOICE OF FRAGMENT HELICAL AXIS

Bingman, C.A., Zon, G., Sundaralingam, M.

(1992) J Mol Biology 227: 738-756

Released	1993-04-15
Method	X-RAY DIFFRACTION 2.5 Å
Macromolecule	DNA (5'-D(CPCPGPTPAPCPGPTPAPCPGPG)-3') (nucleic acid)

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117D \| pdb_0000117d	Download File View File

CRYSTAL AND MOLECULAR STRUCTURE OF THE ALTERNATING DODECAMER D(GCGTACGTACGC) IN THE A-DNA FORM: COMPARISON WITH THE ISOMORPHOUS NON-ALTERNATING DODECAMER D(CCGTACGTACGG)

Bingman, C.A., Jain, S., Zon, G., Sundaralingam, M.

(1992) Nucleic Acids Res 20: 6637-6647

Released	1993-04-15
Method	X-RAY DIFFRACTION 2.55 Å
Macromolecule	DNA (5'-D(GPCPGPTPAPCPGPTPAPCPGPC)-3') (nucleic acid)

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118D \| pdb_0000118d	Download File View File

CRYSTAL AND MOLECULAR STRUCTURE OF D(GTGCGCAC): INVESTIGATION OF THE EFFECTS OF BASE SEQUENCE ON THE CONFORMATION OF OCTAMER DUPLEXES

Bingman, C.A., Li, X., Zon, G., Sundaralingam, M.

(1992) Biochemistry 31: 12803-12812

Released	1993-02-11
Method	X-RAY DIFFRACTION 1.64 Å
Macromolecule	DNA (5'-D(GPTPGPCPGPCPAPC)-3') (nucleic acid)

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119D \| pdb_0000119d	Download File View File

CRYSTAL AND MOLECULAR STRUCTURE OF D(CGTAGATCTACG) AT 2.25 ANGSTROMS RESOLUTION

Leonard, G.A., Hunter, W.N.

(1993) J Mol Biology 234: 198-208

Released	1993-10-15
Method	X-RAY DIFFRACTION 2.25 Å
Macromolecule	DNA (5'-D(CPGPTPAPGPAPTPCPTPAPCPG)-3') (nucleic acid)
Unique Ligands	MG

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121D \| pdb_0000121d	Download File View File

MOLECULAR STRUCTURE OF THE A-TRACT DNA DODECAMER D(CGCAAATTTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN

Tabernero, L., Verdaguer, N., Coll, M., Fita, I., Van Der Marel, G.A., Van Boom, J.H., Rich, A., Aymami, J.

(1993) Biochemistry 32: 8403-8410

Released	1994-01-15
Method	X-RAY DIFFRACTION 2.2 Å
Macromolecule	DNA (5'-D(CPGPCPAPAPAPTPTPTPGPCPG)-3') (nucleic acid)
Unique Ligands	NT

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122D \| pdb_0000122d	Download File View File

DNA HELIX STRUCTURE AND REFINEMENT ALGORITHM: COMPARISON OF MODELS FOR D(CCAGGCM==5==CTGG) DERIVED FROM NUCLSQ, TNT, AND X-PLOR

Hahn, M., Heinemann, U.

(1993) Acta Crystallogr D Biol Crystallogr 49: 468-477

Released	1993-10-15
Method	X-RAY DIFFRACTION 1.7 Å
Macromolecule	DNA (5'-D(CPCPAPGPGPCP(5CM)PTPGPG)-3') (nucleic acid)

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123D \| pdb_0000123d	Download File View File

DNA HELIX STRUCTURE AND REFINEMENT ALGORITHM: COMPARISON OF MODELS FOR D(CCAGGCM==5==CTGG) DERIVED FROM NUCLSQ, TNT, AND X-PLOR

Hahn, M., Heinemann, U.

(1993) Acta Crystallogr D Biol Crystallogr 49: 468-477

Released	1993-10-15
Method	X-RAY DIFFRACTION 1.7 Å
Macromolecule	DNA (5'-D(CPCPAPGPGPCP(5CM)PTPGPG)-3') (nucleic acid)

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126D \| pdb_0000126d	Download File View File

CRYSTAL STRUCTURE OF CATGGCCATG AND ITS IMPLICATIONS FOR A-TRACT BENDING MODELS

Goodsell, D.S., Kopka, M.L., Cascio, D., Dickerson, R.E.

(1993) Proc Natl Acad Sci U S A 90: 2930-2934

Released	1993-10-15
Method	X-RAY DIFFRACTION 2 Å
Macromolecule	DNA (5'-D(CPAPTPGPGPCPCPAPTPG)-3') (nucleic acid)

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127D \| pdb_0000127d	Download File View File

DNA (5'-D(CPGPCPGPAPAPTPTPCPGPCPG)-3') COMPLEXED WITH HOECHST 33258

Sriram, M., Van Der Marel, G.A., Roelen, H.L.P.F., Van Boom, J.H., Wang, A.H.-J.

(1992) EMBO J 11: 225-232

Released	1994-01-15
Method	X-RAY DIFFRACTION 2 Å
Macromolecule	DNA (5'-D(CPGPCPGPAPAPTPTPCPGPCPG)-3') (nucleic acid)
Unique Ligands	HT

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128D \| pdb_0000128d	Download File View File

MOLECULAR STRUCTURE OF D(CGC[E6G]AATTCGCG) COMPLEXED WITH HOECHST 33258

Sriram, M., Van Der Marel, G.A., Roelen, H.L.P.F., Van Boom, J.H., Wang, A.H.-J.

(1992) EMBO J 11: 225-232

Released	1994-01-15
Method	X-RAY DIFFRACTION 2.5 Å
Macromolecule	DNA (5'-D(CPGPCP(G36)PAPAPTPTPCPGPCPG)-3') (nucleic acid)
Unique Ligands	HT

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129D \| pdb_0000129d	Download File View File

DNA (5'-D(CPGPCPGPAPAPTPTPCPGPCPG)-3') COMPLEXED WITH HOECHST 33342

Sriram, M., Van Der Marel, G.A., Roelen, H.L.P.F., Van Boom, J.H., Wang, A.H.-J.

(1992) EMBO J 11: 225-232

Released	1994-01-15
Method	X-RAY DIFFRACTION 2.25 Å
Macromolecule	DNA (5'-D(CPGPCPGPAPAPTPTPCPGPCPG)-3') (nucleic acid)
Unique Ligands	HT1

1 to 25 of 12,918 Structures

Page 1 of 517

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Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Symmetry Type

SCOP Classification

101D | pdb_0000101d

102D | pdb_0000102d

103D | pdb_0000103d

105D | pdb_0000105d

106D | pdb_0000106d

107D | pdb_0000107d

108D | pdb_0000108d

109D | pdb_0000109d

110D | pdb_0000110d

111D | pdb_0000111d

112D | pdb_0000112d

113D | pdb_0000113d

114D | pdb_0000114d

115D | pdb_0000115d

116D | pdb_0000116d

117D | pdb_0000117d

118D | pdb_0000118d

119D | pdb_0000119d

121D | pdb_0000121d

122D | pdb_0000122d

123D | pdb_0000123d

126D | pdb_0000126d

127D | pdb_0000127d

128D | pdb_0000128d

129D | pdb_0000129d