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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Keywords HAS EXACT PHRASE "replication/DNA"

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Search Summary

This query matches 192 Structures.

Refinements

Structure Determination Methodology

experimental (192)

Scientific Name of Source Organism

	synthetic construct (71)
	Homo sapiens (49)
	Saccharomyces cerevisiae (34)
	Escherichia coli (22)
	Geobacillus stearothermophilus (19)
	Escherichia coli K-12 (10)
	Escherichia phage T4 (7)
	African swine fever virus BA71V (6)
	Monkeypox virus (6)
	Mycolicibacterium smegmatis MC2 155 (6)

More...

Taxonomy

	Eukaryota (92)
	other sequences (72)
	Bacteria (56)
	Duplodnaviria (15)
	Varidnaviria (12)
	Monodnaviria (10)
	Archaea (6)
	unclassified sequences (1)

Experimental Method

	X-RAY DIFFRACTION (116)
	ELECTRON MICROSCOPY (75)
	SOLUTION NMR (1)

Polymer Entity Type

	Protein (192)
	DNA (186)
	RNA (6)
	NA-hybrid (1)

Refinement Resolution (Å)

	1.0 - 1.5 (6)
	1.5 - 2.0 (20)
	2.0 - 2.5 (55)
	2.5 - 3.0 (55)
	3.0 - 3.5 (31)
	3.5 - 4.0 (11)
	4.0 - 4.5 (4)
	> 4.5 (9)

Release Date

	1995 - 1999 (3)
	2000 - 2004 (16)
	2005 - 2009 (22)
	2010 - 2014 (6)
	2015 - 2019 (11)
	2020 - 2024 (124)
	2025 - 2029 (10)

Enzyme Classification Name

	Transferases (101)
	Hydrolases (48)
	Lyases (8)
	Isomerases (4)

Symmetry Type

	Asymmetric (159)
	Cyclic (29)
	Helical (3)
	Dihedral (1)

SCOP Classification

	Alpha and beta proteins (a+b) (19)
	All alpha proteins (13)
	All beta proteins (5)
	Multi-domain proteins (alpha and beta) (15)
	Artifacts (5)
	Alpha and beta proteins (a/b) (4)

AllSelected

1 to 25 of 192 Structures

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1CRX \| pdb_00001crx	Download File View File

CRE RECOMBINASE/DNA COMPLEX REACTION INTERMEDIATE I

Guo, F., Gopaul, D.N., Van Duyne, G.D.

(1997) Nature 389: 40-46

Released	1998-10-14
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Punavirus P1 synthetic construct
Macromolecule	Cre recombinase (protein) DNA (5'-D(APTPAPTPGPCPTPAPTPAPCPGPAPAPGPTPTPAPT)-3') (nucleic acid) DNA (5'-D(TPAPTPAPAPCPTPTPCPGPTPAPTPAPG)-3') (nucleic acid) DNA (5'-D(PAPTPAPAPCPTPTPCPGPTPAPTPAPGP*C)-3') (nucleic acid)

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1ECR \| pdb_00001ecr	Download File View File

ESCHERICHIA COLI REPLICATION TERMINATOR PROTEIN (TUS) COMPLEXED WITH DNA

Kamada, K., Morikawa, K.

(1996) Nature 383: 598-603

Released	1997-09-05
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Escherichia coli B
Macromolecule	PROTEIN (REPLICATION-TERMINATOR PROTEIN) (protein) DNA (5'-D(TPAPGPTPAPTPGPTPTPGPTPAPAPCPTPA)-3 (nucleic acid) DNA (5'-D(TPTPAPGPTPTPAPCPAPAPCPAPTPAPCPT)-3 (nucleic acid)

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1EWQ \| pdb_00001ewq	Download File View File

CRYSTAL STRUCTURE TAQ MUTS COMPLEXED WITH A HETERODUPLEX DNA AT 2.2 A RESOLUTION

Obmolova, G., Ban, C., Hsieh, P., Yang, W.

(2000) Nature 407: 703-710

Released	2000-10-23
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Thermus aquaticus
Macromolecule	DNA MISMATCH REPAIR PROTEIN MUTS (protein) DNA (5'-D(GPCPGPAPCPGPCPTPAPGPCPGPTPGPCPGPGPCPTPCPGPTPC)-3') (nucleic acid) DNA (5'-D(GPGPAPCPGPAPGPCPCPGPCPCPGPCPTPAPGPCPGPTPCP*G)-3') (nucleic acid)
Unique Ligands	EDO, SO4

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1EYG \| pdb_00001eyg	Download File View File

Crystal structure of chymotryptic fragment of E. coli ssb bound to two 35-mer single strand DNAS

Raghunathan, S., Waksman, G.

(2000) Nat Struct Biol 7: 648-652

Released	2000-08-01
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Escherichia coli
Macromolecule	SINGLE-STRAND DNA-BINDING PROTEIN (protein) SINGLE STRANDED 28-MER OF D(C) (nucleic acid)

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1F4K \| pdb_00001f4k	Download File View File

CRYSTAL STRUCTURE OF THE REPLICATION TERMINATOR PROTEIN/B-SITE DNA COMPLEX

Wilce, J.A., Vivian, J.P., Hastings, A.F., Otting, G., Folmer, R.H.A., Duggin, I.G., Wake, R.G., Wilce, M.C.J.

(2001) Nat Struct Biol 8: 206-210

Released	2001-06-08
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Bacillus subtilis
Macromolecule	REPLICATION TERMINATION PROTEIN (protein) 5'-D(CPTPAPTPGPAPAPCPAPTPAPAPTPGPTPTPCPAPTPAPG)-3' (nucleic acid) 5'-D(CPTPAPTPGPAPAPCPAPTPTPAPTPGPTPTPCPAPTPAPG)-3' (nucleic acid)

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1FW6 \| pdb_00001fw6	Download File View File

CRYSTAL STRUCTURE OF A TAQ MUTS-DNA-ADP TERNARY COMPLEX

Junop, M.S., Obmolova, G., Rausch, K., Hsieh, P., Yang, W.

(2001) Mol Cell 7: 1-12

Released	2001-02-19
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Thermus aquaticus
Macromolecule	DNA MISMATCH REPAIR PROTEIN MUTS (protein) 5'-D(GPCPGPAPCPGPCPTPAPGPCPGPTPGPCPGPGPCPTPCPGPTPC)-3' (nucleic acid) 5'-D(GPGPAPCPGPAPGPCPCPGPCPCPGPCPTPAPGPCPGPTPCP*G)-3' (nucleic acid)
Unique Ligands	ADP, MG, SO4

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1J1V \| pdb_00001j1v	Download File View File

Crystal structure of DnaA domainIV complexed with DnaAbox DNA

Fujikawa, N., Kurumizaka, H., Nureki, O., Terada, T., Shirouzu, M., Katayama, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2003) Nucleic Acids Res 31: 2077-2086

Released	2003-04-22
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Escherichia coli
Macromolecule	Chromosomal replication initiator protein dnaA (protein) 5'-D(CPCPTPGPTPGPGPAPTPAPAPCPA)-3' (nucleic acid) 5'-D(TPGPTPTPAPTPCPCPAPCPAPGPG)-3' (nucleic acid)

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1J3E \| pdb_00001j3e	Download File View File

Crystal Structure of the E.coli SeqA protein complexed with N6-methyladenine- guanine mismatch DNA

Fujikawa, N., Kurumizaka, H., Nureki, O., Tanaka, Y., Yamazoe, M., Hiraga, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2004) Nucleic Acids Res 32: 82-92

Released	2004-05-18
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Escherichia coli
Macromolecule	SeqA protein (protein) 5'-D(APAPGPGP(6MA)PTPCPCPAPA)-3' (nucleic acid) 5'-D(TPTPGPGPAPGPCPCPTPT)-3' (nucleic acid)

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1JMC \| pdb_00001jmc	Download File View File

SINGLE STRANDED DNA-BINDING DOMAIN OF HUMAN REPLICATION PROTEIN A BOUND TO SINGLE STRANDED DNA, RPA70 SUBUNIT, RESIDUES 183-420

Bochkarev, A., Pfuetzner, R., Edwards, A., Frappier, L.

(1997) Nature 385: 176-181

Released	1997-10-16
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	PROTEIN (REPLICATION PROTEIN A (RPA)) (protein) DNA (5'-D(CPCPCPCPCPCPCPC)-3') (nucleic acid)

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1KSX \| pdb_00001ksx	Download File View File

Crystal Structures of Two Intermediates in the Assembly of the Papillomavirus Replication Initiation Complex

Enemark, E.J., Stenlund, A., Joshua-Tor, L.

(2002) EMBO J 21: 1487-1496

Released	2002-03-15
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Bovine papillomavirus
Macromolecule	REPLICATION PROTEIN E1 (protein) E1 Recognition Sequence (nucleic acid)

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1KSY \| pdb_00001ksy	Download File View File

Crystal Structures of Two Intermediates in the Assembly of the Papillomavirus Replication Initiation Complex

Enemark, E.J., Stenlund, A., Joshua-Tor, L.

(2002) EMBO J 21: 1487-1496

Released	2002-03-15
Method	X-RAY DIFFRACTION 3.05 Å
Organisms	Bovine papillomavirus
Macromolecule	REPLICATION PROTEIN E1 (protein) E1 Recognition Sequence, Strand 1 (nucleic acid) E1 Recognition Sequence, Strand 2 (nucleic acid)

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1NZB \| pdb_00001nzb	Download File View File

Crystal structure of wild type Cre recombinase-loxP synapse

Ennifar, E., Meyer, J.E.W., Buchholz, F., Stewart, A.F., Suck, D.

(2003) Nucleic Acids Res 31: 5449-5460

Released	2003-09-16
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Punavirus P1
Macromolecule	Cre recombinase (protein) loxP DNA (nucleic acid)
Unique Ligands	IOD, MG

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1OUQ \| pdb_00001ouq	Download File View File

Crystal structure of wild-type Cre recombinase-loxP synapse

Ennifar, E., Meyer, J.E.W., Buchholz, F., Stewart, A.F., Suck, D.

(2003) Nucleic Acids Res 31: 5449-5460

Released	2003-09-16
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Punavirus P1
Macromolecule	Cre recombinase (protein) loxP DNA (nucleic acid)
Unique Ligands	IOD, MG

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1Q3U \| pdb_00001q3u	Download File View File

Crystal structure of a wild-type Cre recombinase-loxP synapse: pre-cleavage complex

Ennifar, E., Meyer, J.E.W., Buchholz, F., Stewart, A.F., Suck, D.

(2003) Nucleic Acids Res 31: 5449-5460

Released	2003-09-16
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Punavirus P1
Macromolecule	Cre recombinase (protein) loxP DNA (nucleic acid)
Unique Ligands	IOD, MG

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1Q3V \| pdb_00001q3v	Download File View File

Crystal structure of a wild-type Cre recombinase-loxP synapse: phosphotyrosine covalent intermediate

Ennifar, E., Meyer, J.E.W., Buchholz, F., Stewart, A.F., Suck, D.

(2003) Nucleic Acids Res 31: 5449-5460

Released	2003-09-16
Method	X-RAY DIFFRACTION 2.91 Å
Organisms	Punavirus P1
Macromolecule	Cre recombinase (protein) loxP DNA (nucleic acid)
Unique Ligands	IOD, MG

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1REP \| pdb_00001rep	Download File View File

CRYSTAL STRUCTURE OF REPLICATION INITIATOR PROTEIN REPE54 OF MINI-F PLASMID COMPLEXED WITH AN ITERON DNA

Komori, H., Matsunaga, F., Higuchi, Y., Ishiai, M., Wada, C., Miki, K.

(1999) EMBO J 18: 4597-4607

Released	2000-02-09
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Escherichia coli
Macromolecule	PROTEIN (REPLICATION INITIATION PROTEIN) (protein) DNA (5'-D(CPCPTPGPTPGPAPCPAPAPAPTPTPGPCPCPCPTPCPAPGPT)-3') (nucleic acid) DNA (5'-D(CPTPGPAPGPGPGPCPAPAPTPTPTPGPTPCPAPCPAPGPGPT)-3') (nucleic acid)
Unique Ligands	MG

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1T3N \| pdb_00001t3n	Download File View File

Structure of the catalytic core of DNA polymerase Iota in complex with DNA and dTTP

Nair, D.T., Johnson, R.E., Prakash, S., Prakash, L., Aggarwal, A.K.

(2004) Nature 430: 377-380

Released	2004-07-20
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Homo sapiens
Macromolecule	polymerase (DNA directed) iota (protein) Primer DNA strand (nucleic acid) Template DNA strand (nucleic acid)
Unique Ligands	MG, TTP

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1ZET \| pdb_00001zet	Download File View File

X-ray data do not support hoogsteen base-pairing during replication by human polymerase iota

Wang, J.

(2005) Nature 437: E6-7; discussion E7

Released	2005-07-19
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Homo sapiens
Macromolecule	Polymerase (DNA directed) iota (protein) 5'-D(GPGPGPGPGPAPAPGPGPAPCPCP(DOC))-3' (nucleic acid) 5'-D(PAPGPGPGP(BRU)PCPCP(BRU)P(BRU)PCPCPCPCP*C)-3' (nucleic acid)
Unique Ligands	MG, TTP

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2EFW \| pdb_00002efw	Download File View File

Crystal structure of the RTP:nRB complex from Bacillus subtilis

Vivian, J.P., Porter, C.J., Wilce, J.A., Wilce, M.C.J.

(2007) J Mol Biology 370: 481-491

Released	2008-02-26
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Bacillus subtilis
Macromolecule	Replication termination protein (protein) DNA (5'-D(DCPDTDAPDTPDGPDTPDAPDCPDCPDAPDAPDAPDTPDGPDTPDTPDCPDAPDGPDTPDC)-3') (nucleic acid) DNA (5'-D(DGPDAPDCPDTPDGPDAPDAPDCPDAPDTPDTPDTPDGPDGPDTPDAPDCPDAPDTPDAPDG)-3') (nucleic acid)

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2EWJ \| pdb_00002ewj	Download File View File

Escherichia Coli Replication Terminator Protein (Tus) Complexed With DNA- Locked form

Oakley, A.J., Mulcair, M.D., Schaeffer, P.M., Dixon, N.E.

(2006) Cell 125: 1309-1319

Released	2006-05-03
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Escherichia coli
Macromolecule	DNA replication terminus site-binding protein (protein) 5'-D(TTPAPGPTPTPAPCPAPAPCPAPTPAPCPT)-3' (nucleic acid) 5'-D(TPGAPTPAPTPGPTPTPGPTPAPAPCPTPA)-3' (nucleic acid)
Unique Ligands	IOD

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2FLL \| pdb_00002fll	Download File View File

Ternary complex of human DNA polymerase iota with DNA and dTTP

Nair, D.T., Johnson, R.E., Prakash, L., Prakash, S., Aggarwal, A.K.

(2006) Structure 14: 749-755

Released	2006-12-12
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Homo sapiens
Macromolecule	DNA polymerase iota (protein) DNA primer strand (nucleic acid) DNA template strand (nucleic acid)
Unique Ligands	MG, TTP

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2FLN \| pdb_00002fln	Download File View File

binary complex of catalytic core of human DNA polymerase iota with DNA (template A)

Nair, D.T., Johnson, R.E., Prakash, L., Prakash, S., Aggarwal, A.K.

(2006) Structure 14: 749-755

Released	2006-12-05
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Homo sapiens
Macromolecule	DNA polymerase iota (protein) DNA primer strand (nucleic acid) DNA template strand (nucleic acid)

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2FLP \| pdb_00002flp	Download File View File

Binary complex of the catalytic core of human DNA polymerase iota with DNA (template G)

Nair, D.T., Johnson, R.E., Prakash, L., Prakash, S., Aggarwal, A.K.

(2006) Structure 14: 749-755

Released	2006-12-05
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	DNA polymerase iota (protein) DNA primer strand (nucleic acid) DNA template strand (nucleic acid)

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2GXA \| pdb_00002gxa	Download File View File

Crystal structure of papillomavirus E1 hexameric helicase with ssDNA and MgADP

Enemark, E.J., Joshua-Tor, L.

(2006) Nature 442: 270-275

Released	2006-07-25
Method	X-RAY DIFFRACTION 3.15 Å
Organisms	Deltapapillomavirus 4
Macromolecule	Replication protein E1 (protein) 5'-D(TPTPTPTPTPTPTPTPTPTPTPTP*T)-3' (nucleic acid)
Unique Ligands	ADP, CL, MG

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2I05 \| pdb_00002i05	Download File View File

Escherichia Coli Replication Terminator Protein (Tus) Complexed With TerA DNA

Oakley, A.J., Mulcair, M.D., Schaeffer, P.M., Dixon, N.E.

To be published

Released	2007-08-21
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Escherichia coli
Macromolecule	DNA replication terminus site-binding protein (protein) 5'-D(TTPAPGPTPTPAPCPAPAPCPAPTPAPCPT)-3' (nucleic acid) 5'-D(TPAPGPTPAPTPGPTPTPGPTPAPAPCPTPA)-3' (nucleic acid)
Unique Ligands	IOD

1 to 25 of 192 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

1CRX | pdb_00001crx

1ECR | pdb_00001ecr

1EWQ | pdb_00001ewq

1EYG | pdb_00001eyg

1F4K | pdb_00001f4k

1FW6 | pdb_00001fw6

1J1V | pdb_00001j1v

1J3E | pdb_00001j3e

1JMC | pdb_00001jmc

1KSX | pdb_00001ksx

1KSY | pdb_00001ksy

1NZB | pdb_00001nzb

1OUQ | pdb_00001ouq

1Q3U | pdb_00001q3u

1Q3V | pdb_00001q3v

1REP | pdb_00001rep

1T3N | pdb_00001t3n

1ZET | pdb_00001zet

2EFW | pdb_00002efw

2EWJ | pdb_00002ewj

2FLL | pdb_00002fll

2FLN | pdb_00002fln

2FLP | pdb_00002flp

2GXA | pdb_00002gxa

2I05 | pdb_00002i05