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232,059 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Chem Comp Monomers (Polymer Entity Container Identifiers) = "DU"

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Search Summary

This query matches 117 Structures.

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Structure Determination Methodology

experimental (117)

Scientific Name of Source Organism

	synthetic construct (57)
	Homo sapiens (33)
	Methanothermobacter thermautotrophicus str. Delta H (5)
	Mycobacterium tuberculosis (4)
	Pyrococcus abyssi GE5 (4)
	Francisella tularensis subsp. novicida U112 (3)
	Mycobacterium tuberculosis H37Rv (3)
	Bacillus phage AR9 (2)
	Escherichia coli (2)
	Francisella tularensis subsp. novicida (2)

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Taxonomy

	other sequences (57)
	Eukaryota (36)
	Archaea (14)
	Bacteria (13)
	Riboviria (5)
	Duplodnaviria (2)
	Varidnaviria (2)

Experimental Method

	X-RAY DIFFRACTION (96)
	SOLUTION NMR (18)
	ELECTRON MICROSCOPY (3)

Polymer Entity Type

	DNA (91)
	Protein (68)
	RNA (16)
	NA-hybrid (15)

Refinement Resolution (Å)

	1.0 - 1.5 (10)
	1.5 - 2.0 (26)
	2.0 - 2.5 (20)
	2.5 - 3.0 (13)
	3.0 - 3.5 (9)
	3.5 - 4.0 (10)
	4.0 - 4.5 (10)
	> 4.5 (1)

Release Date

	1990 - 1994 (3)
	1995 - 1999 (4)
	2000 - 2004 (14)
	2005 - 2009 (13)
	2010 - 2014 (26)
	2015 - 2019 (20)
	2020 - 2024 (37)

Enzyme Classification Name

	Hydrolases (23)
	Transferases (11)
	Lyases (7)
	Isomerases (2)

Symmetry Type

	Asymmetric (53)
	Cyclic (15)

SCOP Classification

	Alpha and beta proteins (a+b) (8)
	Alpha and beta proteins (a/b) (6)
	All beta proteins (3)
	Artifacts (5)
	All alpha proteins (1)
	Multi-domain proteins (alpha and beta) (2)
	Small proteins (1)

AllSelected

1 to 25 of 117 Structures

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1A1V	Download File View File

HEPATITIS C VIRUS NS3 HELICASE DOMAIN COMPLEXED WITH SINGLE STRANDED SDNA

Kim, J.L., Morgenstern, K.A., Griffith, J.P., Dwyer, M.D., Thomson, J.A., Murcko, M.A., Lin, C., Caron, P.R.

(1998) Structure 6: 89-100

Released	1999-01-13
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Hepatitis C virus (isolate H)
Macromolecule	PROTEIN (NS3 PROTEIN) (protein) DNA (5'-D(UPUPUPUPUPUPUPU)-3') (nucleic acid)
Unique Ligands	SO4

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1D40	Download File View File

BASE SPECIFIC BINDING OF COPPER(II) TO Z-DNA: THE 1.3-ANGSTROMS SINGLE CRYSTAL STRUCTURE OF D(M5CGUAM5CG) IN THE PRESENCE OF CUCL2

Geierstanger, B.H., Kagawa, T.F., Chen, S.-L., Quigley, G.J., Ho, P.S.

(1991) J Biol Chem 266: 20185-20191

Released	1992-04-15
Method	X-RAY DIFFRACTION 1.3 Å
Macromolecule	DNA (5'-D((5CM)P(CU)GPUPAP(5CM)P(CU)G)-3') (nucleic acid)
Unique Ligands	CU, CUL

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1D41	Download File View File

STABILIZATION OF Z-DNA BY DEMETHYLATION OF THYMINE BASES: 1.3 ANGSTROMS SINGLE-CRYSTAL STRUCTURE OF D(M5CGUAM5CG)

Zhou, G., Ho, P.S.

(1990) Biochemistry 29: 7229-7236

Released	1992-04-15
Method	X-RAY DIFFRACTION 1.3 Å
Macromolecule	DNA (5'-D((5CM)PGPUPAP(5CM)PG)-3') (nucleic acid)
Unique Ligands	MG

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1D76	Download File View File

CRYSTAL AND MOLECULAR STRUCTURE OF A DNA FRAGMENT CONTAINING A 2-AMINO ADENINE MODIFICATION: THE RELATIONSHIP BETWEEN CONFORMATION, PACKING, AND HYDRATION IN Z-DNA HEXAMERS

Schneider, B., Ginell, S.L., Jones, R., Gaffney, B., Berman, H.M.

(1992) Biochemistry 31: 9622-9628

Released	1992-09-15
Method	X-RAY DIFFRACTION 1.3 Å
Macromolecule	DNA (5'-D(CPGPUP(1AP)PCPG)-3') (nucleic acid)

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1DGO	Download File View File

SOLUTION STRUCTURE OF A URACIL CONTAINING HAIRPIN DNA

Ghosh, M., Kumar, N.V., Varshney, U., Chary, K.V.R.

(2000) Nucleic Acids Res 28: 1906-1912

Released	2000-05-03
Method	SOLUTION NMR
Macromolecule	URACIL CONTAINING HAIRPIN DNA (nucleic acid)

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1EG6	Download File View File

CRYSTAL STRUCTURE ANALYSIS OF D(CG(5-BRU)ACG) COMPLEXES TO A PHENAZINE

Cardin, C.J., Denny, W.A., Hobbs, J.R., Thorpe, J.H.

(2000) Biochemistry 39: 15055-15061

Released	2001-01-03
Method	X-RAY DIFFRACTION 2 Å
Macromolecule	5'-D(CPGP(BRO)UPAPCPG)-3' (nucleic acid)
Unique Ligands	3CO, BFA, BR

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1EL2	Download File View File

SOLUTION STRUCTURE OF A MODIFIED HUMAN TELOMERE FRAGMENT (STRUCTURE "A")

Phan, A.T., Gueron, M., Leroy, J.-L.

(2000) J Mol Biol 299: 123-144

Released	2000-03-27
Method	SOLUTION NMR
Macromolecule	5'-D(CPCPCPTPAPAP(5CM)PCPCPTPAPAPCPCPCPUPAPAPCPCPCPT)-3' (nucleic acid)

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1ELN	Download File View File

SOLUTION STRUCTURE OF A MODIFIED HUMAN TELOMERE FRAGMENT (STRUCTURE "S")

Phan, A.T., Gueron, M., Leroy, J.-L.

(2000) J Mol Biol 299: 123-144

Released	2000-03-27
Method	SOLUTION NMR
Macromolecule	5'-D(CPCPCPTPAPAP(5CM)PCPCPTPAPAPCPCPCPUPAPAPCPCPCPT)-3' (nucleic acid)

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1G22	Download File View File

SOLUTION STRUCTURE OF A MODIFIED HUMAN CENTROMERIC FRAGMENT

Nonin-Lecomte, S., Leroy, J.-L.

(2001) J Mol Biol 309: 491-506

Released	2001-05-02
Method	SOLUTION NMR
Macromolecule	CENTROMERIC SATELLITE III (nucleic acid)

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1IDX	Download File View File

Structural Basis for Poor Excision from Hairpin DNA: NMR Study

Ghosh, M., Rumpal, N., Varshney, U., Chary, K.V.

(2002) Eur J Biochem 269: 1886-1894

Released	2002-05-08
Method	SOLUTION NMR
Macromolecule	5'-D(APGPGPAPTPCPCPTPTPUPTPGPGPAPTPCPCPT)-3' (nucleic acid)

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1II1	Download File View File

Structural Basis for Poor Uracil Excision from Hairpin DNA: NMR Study

Ghosh, M., Rumpal, N., Varshney, U., Chary, K.V.

(2002) Eur J Biochem 269: 1886-1894

Released	2002-05-08
Method	SOLUTION NMR
Macromolecule	5'-D(APGPGPAPTPCPCPUPTPTPTPGPGPAPTPCPCPT)-3' (nucleic acid)

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1JS5	Download File View File

Solution Structure of dAAUAA DNA Bulge

Gollmick, F.A., Lorenz, M., Dornberger, U., von Langen, J., Diekmann, S., Fritzsche, H.

(2002) Nucleic Acids Res 30: 2669-2677

Released	2002-08-28
Method	SOLUTION NMR
Macromolecule	5'-D(CPGPTPAPGPCPCPGPAPTPGPC)-3' (nucleic acid) 5'-D(GPCPAPTPCPGPAPAPUPAPAPGPCPTPAPCP*G)-3' (nucleic acid)

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1JS7	Download File View File

Solution Structure of dAAUAA DNA Bulge

Gollmick, F.A., Lorenz, M., Dornberger, U., von Langen, J., Diekmann, S., Fritzsche, H.

(2002) Nucleic Acids Res 30: 2669-2677

Released	2002-06-19
Method	SOLUTION NMR
Macromolecule	5'-D(CPGPTPAPGPCPCPGPAPTPGPC)-3' (nucleic acid) 5'-D(GPCPAPTPCPGPAPAPUPAPAPGPCPTPAPCP*G)-3' (nucleic acid)

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1MWJ	Download File View File

Crystal Structure of a MUG-DNA pseudo substrate complex

Barrett, T.E., Scharer, O., Savva, R., Brown, T., Jiricny, J., Verdine, G.L., Pearl, L.H.

(1999) EMBO J 18: 6599-6609

Released	2002-10-11
Method	X-RAY DIFFRACTION 2.85 Å
Organisms	Escherichia coli
Macromolecule	G/U mismatch-specific DNA glycosylase (protein) 5'-D(CPGPCPGPAGP(DU)PTPCPGPCPG)-3' (nucleic acid)

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1NH3	Download File View File

Human Topoisomerase I Ara-C Complex

Chrencik, J.E., Burgin, A.B., Pommier, Y., Stewart, L., Redinbo, M.R.

(2003) J Biol Chem 278: 12461-12466

Released	2003-03-04
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Homo sapiens
Macromolecule	DNA topoisomerase I (protein) 5'-D((GNG)PGPAPAPAPAPAPUPUPUPUPT)-3' (nucleic acid) 5'-D(APAPAPAPAPGPAPCPUP(UBB))-3' (nucleic acid) 5'-D(APAPAPAPAPTPUPUPUPUPCP(CAR)PAPAPGPUPCPUPUPUPUPT)-3' (hybrid)

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1NTQ	Download File View File

5'(dCCUCCUU)3':3'(rAGGAGGAAA)5'

Znosko, B.M., Barnes III, T.W., Krugh, T.R., Turner, D.H.

(2003) J Am Chem Soc 125: 6090-6097

Released	2003-06-10
Method	SOLUTION NMR
Macromolecule	5'-D(CPCPUPCPCPUPU)-3' (nucleic acid) 5'-R(APAPAPGPGPAPGPGPA)-3' (nucleic acid)

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1QE7	Download File View File

SOLUTION STRUCTURE OF A URACIL CONTAINING HAIRPIN DNA

Chary, K.V.R., Ghosh, M.

(1999) Nucleic Acids Res 27: 3938-3944

Released	2000-02-02
Method	SOLUTION NMR
Macromolecule	URACIL CONTAINING HAIRPIN 22-MER DNA (nucleic acid)

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230D	Download File View File

SOLUTION STRUCTURES OF UNIMOLECULAR QUADRUPLEXES FORMED BY OLIGONUCLEOTIDES CONTAINING OXYTRICHA TELOMERE REPEATS

Smith, F.W., Schultze, P., Feigon, J.

(1995) Structure 3: 997-1008

Released	1995-10-15
Method	SOLUTION NMR
Macromolecule	QUADRUPLEXES DNA (nucleic acid)

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271D	Download File View File

STRUCTURAL STUDIES ON NUCLEIC ACIDS

Partridge, B.L., Salisbury, S.A.

(1996) To be published

Released	1996-08-28
Method	X-RAY DIFFRACTION 2.02 Å
Macromolecule	DNA (5'-D(CPGPCPGPAPAPUPUPCPGPCPG)-3') (nucleic acid)
Unique Ligands	MG

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2AQY	Download File View File

(3+1) assembly of three human telomeric DNA repeats into an asymmetrical dimeric G-quadruplex

Zhang, N., Phan, A.T., Patel, D.J.

(2005) J Am Chem Soc 127: 17277-17285

Released	2006-03-07
Method	SOLUTION NMR
Macromolecule	5'-D(GP(OIP)PGPTPTPAPGPGPGPTPTPAPGPGPGPT)-3' (nucleic acid) 5'-D(TPAPGPGPGP(DU))-3' (nucleic acid)

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2B0E	Download File View File

EcoRV Restriction Endonuclease/GAAUTC/Ca2+

Hiller, D.A., Rodriguez, A.M., Perona, J.J.

(2005) J Mol Biol 354: 121-136

Released	2005-09-27
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Escherichia coli
Macromolecule	Type II restriction enzyme EcoRV (protein) 5'-D(APAPAPGPAPAP(DU)PTPCPTP*T)-3' (nucleic acid)
Unique Ligands	CA

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2DP7	Download File View File

Crystal Structure of D(CGCGAATXCGCG) Where X is 5-(N-aminohexyl)carbamoyl-2'-deoxyuridine

Juan, E.C.M., Kondo, J., Kurihara, T., Ito, T., Ueno, Y., Matsuda, A., Takenaka, A.

(2007) Nucleic Acids Res 35: 1969-1977

Released	2007-04-17
Method	X-RAY DIFFRACTION 1.55 Å
Macromolecule	DNA (5'-D(DCPDGPDCPDGPDAPDAPDTPDUPDCPDGPDCPDG)-3') (nucleic acid)
Unique Ligands	CMY, K, MG

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2DPB	Download File View File

Crystal Structure of d(CGCGAATXCGCG) Where X is 5-(N-aminohexyl)carbamoyl-2'-deoxyuridine

Juan, E.C.M., Kondo, J., Kurihara, T., Ito, T., Ueno, Y., Matsuda, A., Takenaka, A.

(2007) Nucleic Acids Res 35: 1969-1977

Released	2007-04-17
Method	X-RAY DIFFRACTION 1.5 Å
Macromolecule	DNA (5'-D(DCPDGPDCPDGPDAPDAPDTPDUPDCPDGPDCPDG)-3') (nucleic acid)
Unique Ligands	CMY, K

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2F55	Download File View File

Two hepatitis c virus ns3 helicase domains complexed with the same strand of dna

Lu, J.Z., Jordan, J.B., Sakon, J.

(2006) J Biol Chem 281: 3528-3535

Released	2005-12-06
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Hepacivirus hominis
Macromolecule	polyprotein (protein) 5'-D(P(DU)P(DU)P(DU))-3' (nucleic acid) 5'-D(P(DU)P(DU)P(DU)P(DU)P(DU)P(DU)P(DU)P(DU)P(DU)P(DU)P(DU)P(DU)P(DU))-3' (nucleic acid)
Unique Ligands	SO4

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2GJW	Download File View File

RNA Recognition and Cleavage by an Splicing Endonuclease

Xue, S., Calvin, K., Li, H.

(2006) Science 312: 902-910

Released	2006-09-12
Method	X-RAY DIFFRACTION 2.85 Å
Organisms	Archaeoglobus fulgidus
Macromolecule	tRNA-splicing endonuclease (protein) 5'-R(APGPGPUPCPGPC)-3' (nucleic acid) 5'-R(GPCPGPAPCPCPGPAPCPCPAP(DU)PAPGPCPUPGPCPA)-3' (nucleic acid) 5'-R(UPGPCPAPGPCPGPGPUPCPAP(A23))-3' (nucleic acid)

1 to 25 of 117 Structures

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