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235,183 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Keywords HAS EXACT PHRASE "DNA-RNA HYBRID"

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Search Summary

This query matches 125 Structures.

Refinements

Structure Determination Methodology

experimental (125)

Scientific Name of Source Organism

	Saccharomyces cerevisiae (32)
	synthetic construct (28)
	Mus musculus (4)
	Thermotoga maritima (3)
	Thermus thermophilus HB8 (3)
	Homo sapiens (2)
	Human immunodeficiency virus 1 (2)
	Arabidopsis (1)
	Escherichia coli (1)
	Escherichia phage T7 (1)

More...

Taxonomy

	Eukaryota (39)
	other sequences (28)
	Bacteria (7)
	Riboviria (2)
	Duplodnaviria (1)

Experimental Method

	X-RAY DIFFRACTION (93)
	SOLUTION NMR (31)
	ELECTRON MICROSCOPY (1)

Polymer Entity Type

	DNA (91)
	RNA (83)
	Protein (45)
	NA-hybrid (41)

Refinement Resolution (Å)

	0.5 - 1.0 (1)
	1.0 - 1.5 (6)
	1.5 - 2.0 (19)
	2.0 - 2.5 (16)
	2.5 - 3.0 (12)
	3.0 - 3.5 (15)
	3.5 - 4.0 (17)
	4.0 - 4.5 (7)
	> 4.5 (1)

Release Date

	1990 - 1994 (9)
	1995 - 1999 (28)
	2000 - 2004 (27)
	2005 - 2009 (31)
	2010 - 2014 (6)
	2015 - 2019 (5)
	2020 - 2024 (19)

Enzyme Classification Name

	Transferases (38)
	Hydrolases (3)

Symmetry Type

Asymmetric (45)

SCOP Classification

	Low resolution protein structures (7)
	Alpha and beta proteins (a+b) (11)
	Multi-domain proteins (alpha and beta) (15)
	All alpha proteins (13)
	Small proteins (11)
	All beta proteins (12)
	Alpha and beta proteins (a/b) (14)

AllSelected

1 to 25 of 125 Structures

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100D \| pdb_0000100d	Download File View File

CRYSTAL STRUCTURE OF THE HIGHLY DISTORTED CHIMERIC DECAMER R(C)D(CGGCGCCG)R(G)-SPERMINE COMPLEX-SPERMINE BINDING TO PHOSPHATE ONLY AND MINOR GROOVE TERTIARY BASE-PAIRING

Ban, C., Ramakrishnan, B., Sundaralingam, M.

(1994) Nucleic Acids Res 22: 5466-5476

Released	1995-03-31
Method	X-RAY DIFFRACTION 1.9 Å
Macromolecule	DNA/RNA (5'-R(CP)-D(CPGPGPCPGPCPCPGP)-R(G)-3') (hybrid)
Unique Ligands	SPM

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104D \| pdb_0000104d	Download File View File

DNA DUPLEXES FLANKED BY HYBRID DUPLEXES: THE SOLUTION STRUCTURE OF CHIMERIC JUNCTIONS IN

Zhu, L., Salazar, M., Reid, B.R.

(1995) Biochemistry 34: 2372-2380

Released	1995-03-31
Method	SOLUTION NMR
Macromolecule	DNA/RNA (5'-R(CPGPCPG)-D(PTPAPTPAPCPGPCPG)-3') (hybrid)

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124D \| pdb_0000124d	Download File View File

STRUCTURE OF A DNA:RNA HYBRID DUPLEX: WHY RNASE H DOES NOT CLEAVE PURE RNA

Fedoroff, O.Y., Salazar, M., Reid, B.R.

(1993) J Mol Biology 233: 509-523

Released	1993-10-31
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(GPTPCPAPCPAPTPG)-3') (nucleic acid) RNA (5'-R(CPAPUPGPUPGPAPC)-3') (nucleic acid)

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161D \| pdb_0000161d	Download File View File

A SINGLE 2'-HYDROXYL GROUP CONVERTS B-DNA TO A-DNA: CRYSTAL STRUCTURE OF THE DNA-RNA CHIMERIC DECAMER DUPLEX D(CCGGC)R(G)D(CCGG) WITH A NOVEL INTERMOLECULAR G.C BASE-PAIRED QUADRUPLET

Ban, C., Ramakrishnan, B., Sundaralingam, M.

(1994) J Mol Biology 236: 275-285

Released	1994-05-18
Method	X-RAY DIFFRACTION 1.9 Å
Macromolecule	DNA/RNA (5'-D(CPCPGPGPCP)-R(GP)-D(CPCPGPG)-3') (hybrid)

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165D \| pdb_0000165d	Download File View File

THE STRUCTURE OF A MISPAIRED RNA DOUBLE HELIX AT 1.6 ANGSTROMS RESOLUTION AND IMPLICATIONS FOR THE PREDICTION OF RNA SECONDARY STRUCTURE

Cruse, W., Saludjian, P., Biala, E., Strazewski, P., Prange, T., Kennard, O.

(1994) Proc Natl Acad Sci U S A 91: 4160-4164

Released	1994-08-31
Method	X-RAY DIFFRACTION 1.55 Å
Macromolecule	DNA/RNA (5'-R(GPCPUPUPCPGPGPCP)-D((BRU))-3') (nucleic acid)
Unique Ligands	RHD

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168D \| pdb_0000168d	Download File View File

STABILIZING EFFECTS OF THE RNA 2'-SUBSTITUENT: CRYSTAL STRUCTURE OF AN OLIGODEOXYNUCLEOTIDE DUPLEX CONTAINING 2'-O-METHYLATED ADENOSINES

Lubini, P., Zuercher, W., Egli, M.

(1994) Chem Biol 1: 39-45

Released	1994-08-31
Method	X-RAY DIFFRACTION 2 Å
Macromolecule	DNA/RNA (5'-D(GPCPGPTP)-R((A2M)P)-D(TPAPCPGPC)-3') (hybrid)

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169D \| pdb_0000169d	Download File View File

THE SOLUTION STRUCTURE OF THE R(GCG)D(TATACCC):D(GGGTATACGC) OKAZAKI FRAGMENT CONTAINS TWO DISTINCT DUPLEX MORPHOLOGIES CONNECTED BY A JUNCTION

Salazar, M., Fedoroff, O.Y., Zhu, L., Reid, B.R.

(1994) J Mol Biology 241: 440-455

Released	1994-07-31
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(GPGPGPTPAPTPAPCPGPC)-3') (nucleic acid) DNA/RNA (5'-R(GPCPG)-D(PTPAPTPAPCPCPC)-3') (hybrid)

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1AC3 \| pdb_00001ac3	Download File View File

SOLUTION STRUCTURE OF AN RNA-DNA HYBRID DUPLEX CONTAINING A 3'-THIOFORMACETAL LINKER AND AN RNA A-TRACT, NMR, 8 STRUCTURES

Cross, C.W., Rice, J.S., Gao, X.

(1997) Biochemistry 36: 4096-4107

Released	1997-06-16
Method	SOLUTION NMR
Macromolecule	ANTISENSE HYBRID DUPLEX (nucleic acid) DNA (5'-D((TCP)PTPGPCPGPC)-3') (nucleic acid)

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1BR3 \| pdb_00001br3	Download File View File

CRYSTAL STRUCTURE OF AN 82-NUCLEOTIDE RNA-DNA COMPLEX FORMED BY THE 10-23 DNA ENZYME

Nowakowski, J., Shim, P.J., Prasad, G.S., Stout, C.D., Joyce, G.F.

(1999) Nat Struct Biol 6: 151-156

Released	1999-02-23
Method	X-RAY DIFFRACTION 3 Å
Macromolecule	DNA (10-23 DNA ENZYME) (nucleic acid) RNA (5'-R(GPGPAPCPAPGPAPUPGPGPGPAP*G)-3') (nucleic acid)

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1BYX \| pdb_00001byx	Download File View File

CHIMERIC HYBRID DUPLEX R(GCAGUGGC).R(GCCA)D(CTGC) COMPRISING THE TRNA-DNA JUNCTION FORMED DURING INITIATION OF HIV-1 REVERSE TRANSCRIPTION

Szyperski, T., Goette, M., Billeter, M., Perola, E., Cellai, L.

(1999) J Biomol NMR 13: 343-355

Released	1999-10-20
Method	SOLUTION NMR
Macromolecule	RNA (5'-R(GPCPAPGPUPGPGPC)-3') (nucleic acid) DNA/RNA (5'-R(GPCPCPA)-D(PCPTPGPC)-3') (hybrid)

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1C2Q \| pdb_00001c2q	Download File View File

SOLUTION STRUCTURE OF A DNA.RNA HYBRID CONTAINING AN ALPHAT-ANOMERIC THYMIDINE AND POLARITY REVERSALS

Germann, M.W., Aramini, J.M.

(1999) Biochemistry 38: 15448-15458

Released	1999-11-29
Method	SOLUTION NMR
Macromolecule	5'-D(ATGG-3'-3'-(T3P)-5'-5'-GCTC)-3' (nucleic acid) 5'-R(GAGCACCAU)-3' (nucleic acid)

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1CX5 \| pdb_00001cx5	Download File View File

ANTISENSE DNA/RNA HYBRID CONTAINING MODIFIED BACKBONE

Yang, X., Han, X., Cross, C., Sanghvi, Y., Gao, X.

(1999) Biochemistry 38: 12586-12596

Released	1999-09-14
Method	SOLUTION NMR
Macromolecule	5'-D(CPGPCPGPTPT(MMT)PTPGPCPGPC) (nucleic acid) 5'-R(GPCPGPCPAPAPAPAPCPGPCPG) (nucleic acid)

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1D87 \| pdb_00001d87	Download File View File

CONFORMATIONAL INFLUENCE OF THE RIBOSE 2'-HYDROXYL GROUP: CRYSTAL STRUCTURES OF DNA-RNA CHIMERIC DUPLEXES

Egli, M., Usman, N., Rich, A.

(1993) Biochemistry 32: 3221-3237

Released	1993-07-15
Method	X-RAY DIFFRACTION 2.25 Å
Macromolecule	DNA/RNA (5'-R(GP)-D(CPGPTPAPTPAPCPGP*C)-3') (hybrid)

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1D88 \| pdb_00001d88	Download File View File

CONFORMATIONAL INFLUENCE OF THE RIBOSE 2'-HYDROXYL GROUP: CRYSTAL STRUCTURES OF DNA-RNA CHIMERIC DUPLEXES

Egli, M., Usman, N., Rich, A.

(1993) Biochemistry 32: 3221-3237

Released	1993-07-15
Method	X-RAY DIFFRACTION 2 Å
Macromolecule	DNA/RNA (5'-D(GPCPGPTP)-R(AP)-D(TPAPCPGPC)-3') (hybrid)

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1D96 \| pdb_00001d96	Download File View File

MOLECULAR STRUCTURE OF R(GCG)D(TATACGC): A DNA-RNA HYBRID HELIX JOINED TO DOUBLE HELICAL DNA

Wang, A.H.-J., Fujii, S., Van Boom, J.H., Van Der Marel, G.A., Van Boeckel, S.A.A., Rich, A.

(1982) Nature 299: 601-604

Released	1993-07-15
Method	X-RAY DIFFRACTION 2 Å
Macromolecule	DNA/RNA (5'-R(GPCPGP)-D(TPAPTPAPCPGP*C)-3') (hybrid)

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1DHH \| pdb_00001dhh	Download File View File

NMR SOLUTION STRUCTURE OF THE DNA DUPLEX CONTAINING DNA/RNA HYBRID REGION, D(GG)R(AGAU)D(GAC)/D(GTCATCTCC)

Nishizaki, T., Iwai, S., Ohkubo, T., Kojima, C., Nakamura, H., Kyogoku, Y., Ohtsuka, E.

(1996) Biochemistry 35: 4016-4025

Released	1996-04-03
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(GPTPCPAPTPCPTPCPC)-3') (nucleic acid) DNA/RNA (5'-D(GPG)-R(PAPGPAPU)-D(PGPAPC)-3') (hybrid)

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1DNO \| pdb_00001dno	Download File View File

A-DNA/RNA DODECAMER R(GCG)D(TATACGC) MG BINDING SITES

Robinson, H., Gao, Y.-G., Sanishvili, R., Joachimiak, A., Wang, A.H.-J.

(2000) Nucleic Acids Res 28: 1760-1766

Released	2000-04-10
Method	X-RAY DIFFRACTION 1.4 Å
Macromolecule	DNA/RNA (5'-R(GPCPGP)-D(TPAPTPAPCPGPC)-3') (hybrid)
Unique Ligands	MG

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1DNT \| pdb_00001dnt	Download File View File

RNA/DNA DODECAMER R(GC)D(GTATACGC) WITH MAGNESIUM BINDING SITES

Robinson, H., Gao, Y.-G., Sanishvili, R., Joachimiak, A., Wang, A.H.-J.

(2000) Nucleic Acids Res 28: 1760-1766

Released	2000-04-10
Method	X-RAY DIFFRACTION 1.7 Å
Macromolecule	DNA/RNA (5'-R(GPCP)-D(GPTPAPTPAPCPGPC)-3') (hybrid)
Unique Ligands	MG

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1DNX \| pdb_00001dnx	Download File View File

RNA/DNA DODECAMER R(G)D(CGTATACGC) WITH MAGNESIUM BINDING SITES

Robinson, H., Gao, Y.-G., Sanishvili, R., Joachimiak, A., Wang, A.H.-J.

(2000) Nucleic Acids Res 28: 1760-1766

Released	2000-04-10
Method	X-RAY DIFFRACTION 1.7 Å
Macromolecule	DNA/RNA (5'-R(GP)-D(CPGPTPAPTPAPCPGPC)-3') (hybrid)
Unique Ligands	MG

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1DRN \| pdb_00001drn	Download File View File

NMR SOLUTION STRUCTURE OF THE DNA DUPLEX CONTAINING DNA/RNA HYBRID REGION, D(GGAGA)R(UGAC)/D(GTCATCTCC)

Nishizaki, T., Iwai, S., Ohkubo, T., Kojima, C., Nakamura, H., Kyogoku, Y., Ohtsuka, E.

(1996) Biochemistry 35: 4016-4025

Released	1996-04-03
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(GPTPCPAPTPCPTPCPC)-3') (nucleic acid) DNA/RNA (5'-D(GPGPAPGPA)-R(PUPGPAPC)-3') (hybrid)

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1DRR \| pdb_00001drr	Download File View File

DNA/RNA HYBRID DUPLEX CONTAINING A PURINE-RICH DNA STRAND, NMR, 10 STRUCTURES

Gyi, J.I., Lane, A.N., Conn, G.L., Brown, T.

(1998) Biochemistry 37: 73

Released	1998-04-22
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(GPAPAPGPAPGPAPAPGPC)-3') (nucleic acid) RNA (5'-R(GPCPUPUPCPUPCPUPUPC)-3') (nucleic acid)

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1DXN \| pdb_00001dxn	Download File View File

The Solution Structure of [d(CGC)r(aaa)d(TTTGCG)]2: Hybrid Junctions Flanked by DNA Duplexes

Hsu, S.-T., Chou, M.-T., Cheng, J.-W.

(2000) J Mol Biology 295: 1129

Released	2000-04-11
Method	SOLUTION NMR
Macromolecule	DNA/RNA (5'-D(CPGPCP)-R(APAPAP)-D(TPTPTPGPCPG)-3') (hybrid)

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1EFO \| pdb_00001efo	Download File View File

CRYSTAL STRUCTURE OF AN ADENINE BULGE IN THE RNA CHAIN OF A DNA/RNA HYBRID, D(CTCCTCTTC)/R(GAAGAGAGAG)

Sudarsanakumar, C., Xiong, Y., Sundaralingam, M.

(2000) J Mol Biology 299: 103-112

Released	2000-05-29
Method	X-RAY DIFFRACTION 2.3 Å
Macromolecule	DNA (5'-D(CPTPCPCPTPCPTPTPC)-3') (nucleic acid) RNA (5'-R(GPAPAPGPAPGPAPGPAP*G)-3') (nucleic acid)

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1EFS \| pdb_00001efs	Download File View File

CONFORMATION OF A DNA-RNA HYBRID

Larue, V., Hantz, E.

(2001) Int J Biol Macromol 28: 273-284

Released	2000-03-06
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(GPAPGPAPGPGPAPAPGPAPGPAPA)-3') (nucleic acid) RNA (5'-R(UPUPCPUPCPUPUPCPCPUPCPUPC)-3') (nucleic acid)

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1EGK \| pdb_00001egk	Download File View File

CRYSTAL STRUCTURE OF A NUCLEIC ACID FOUR-WAY JUNCTION

Nowakowski, J., Shim, P.J., Stout, C.D., Joyce, G.F.

(2000) J Mol Biology 300: 93-102

Released	2000-06-26
Method	X-RAY DIFFRACTION 3.1 Å
Macromolecule	10-23 DNA ENZYME (nucleic acid) RNA (5'-R(APGPGPAPGPAPGPAPGPAPUPGPGPGPUPGPCPGPAPG)-3') (nucleic acid)
Unique Ligands	MG

1 to 25 of 125 Structures

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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

100D | pdb_0000100d

104D | pdb_0000104d

124D | pdb_0000124d

161D | pdb_0000161d

165D | pdb_0000165d

168D | pdb_0000168d

169D | pdb_0000169d

1AC3 | pdb_00001ac3

1BR3 | pdb_00001br3

1BYX | pdb_00001byx

1C2Q | pdb_00001c2q

1CX5 | pdb_00001cx5

1D87 | pdb_00001d87

1D88 | pdb_00001d88

1D96 | pdb_00001d96

1DHH | pdb_00001dhh

1DNO | pdb_00001dno

1DNT | pdb_00001dnt

1DNX | pdb_00001dnx

1DRN | pdb_00001drn

1DRR | pdb_00001drr

1DXN | pdb_00001dxn

1EFO | pdb_00001efo

1EFS | pdb_00001efs

1EGK | pdb_00001egk