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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "O'donnell, M."

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Search Summary

This query matches 39 Structures.

Refinements

Structure Determination Methodology

experimental (39)

Scientific Name of Source Organism

	Escherichia coli (15)
	Saccharomyces cerevisiae (14)
	Tequatrovirus T4 (6)
	synthetic construct (6)
	Escherichia coli K-12 (2)
	DNA molecule (1)
	Saccharomyces cerevisiae S288C (1)
	Streptococcus pyogenes (1)

Taxonomy

	Bacteria (18)
	Eukaryota (15)
	Duplodnaviria (6)
	other sequences (6)
	unclassified sequences (1)

Experimental Method

	X-RAY DIFFRACTION (23)
	ELECTRON MICROSCOPY (16)

Polymer Entity Type

	Protein (39)
	DNA (13)
	RNA (3)

Refinement Resolution (Å)

	1.5 - 2.0 (3)
	2.0 - 2.5 (8)
	2.5 - 3.0 (7)
	3.0 - 3.5 (6)
	3.5 - 4.0 (10)
	4.0 - 4.5 (2)
	> 4.5 (3)

Release Date

	1995 - 1999 (1)
	2000 - 2004 (11)
	2005 - 2009 (7)
	2010 - 2014 (4)
	2020 - 2024 (16)

Enzyme Classification Name

	Transferases (28)
	Hydrolases (10)

Symmetry Type

	Asymmetric (33)
	Cyclic (6)

SCOP Classification

	Alpha and beta proteins (a/b) (10)
	All alpha proteins (6)
	Alpha and beta proteins (a+b) (8)
	Multi-domain proteins (alpha and beta) (1)
	Artifacts (1)

AllSelected

1 to 25 of 39 Structures

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1A5T \| pdb_00001a5t	Download File View File

CRYSTAL STRUCTURE OF THE DELTA PRIME SUBUNIT OF THE CLAMP-LOADER COMPLEX OF ESCHERICHIA COLI DNA POLYMERASE III

Guenther, B., Onrust, R., Sali, A., O'Donnell, M., Kuriyan, J.

(1997) Cell 91: 335-345

Released	1998-05-27
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Escherichia coli K-12
Macromolecule	DELTA PRIME (protein)
Unique Ligands	ZN

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1CZD \| pdb_00001czd	Download File View File

CRYSTAL STRUCTURE OF THE PROCESSIVITY CLAMP GP45 FROM BACTERIOPHAGE T4

Moarefi, I., Jeruzalmi, D., Turner, J., O'Donnell, M., Kuriyan, J.

(2000) J Mol Biology 296: 1215-1223

Released	2000-03-03
Method	X-RAY DIFFRACTION 2.45 Å
Organisms	Tequatrovirus T4
Macromolecule	DNA POLYMERASE ACCESSORY PROTEIN G45 (protein)

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1EM8 \| pdb_00001em8	Download File View File

Crystal structure of chi and psi subunit heterodimer from DNA POL III

Gulbis, J.M., Finkelstein, J., O'Donnell, M., Kuriyan, J.

(2004) Eur J Biochem 271: 439-449

Released	2003-08-26
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Escherichia coli
Macromolecule	DNA POLYMERASE III CHI SUBUNIT (protein) DNA POLYMERASE III PSI SUBUNIT (protein)

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1EQN \| pdb_00001eqn	Download File View File

E.COLI PRIMASE CATALYTIC CORE

Podobnik, M., McInerney, P., O'Donnell, M., Kuriyan, J.

(2000) J Mol Biology 300: 353-362

Released	2000-06-30
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Escherichia coli
Macromolecule	DNA PRIMASE (protein)

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1JQJ \| pdb_00001jqj	Download File View File

Mechanism of Processivity Clamp Opening by the Delta Subunit Wrench of the Clamp Loader Complex of E. coli DNA Polymerase III: Structure of the beta-delta complex

Jeruzalmi, D., Yurieva, O., Zhao, Y., Young, M., Stewart, J., Hingorani, M., O'Donnell, M., Kuriyan, J.

(2001) Cell 106: 417-428

Released	2001-11-07
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Escherichia coli
Macromolecule	DNA polymerase III, beta chain (protein) DNA polymerase III, delta subunit (protein)

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1JQL \| pdb_00001jql	Download File View File

Mechanism of Processivity Clamp Opening by the Delta Subunit Wrench of the Clamp Loader Complex of E. coli DNA Polymerase III: Structure of beta-delta (1-140)

Jeruzalmi, D., Yurieva, O., Zhao, Y., Young, M., Stewart, J., Hingorani, M., O'Donnell, M., Kuriyan, J.

(2001) Cell 106: 417-428

Released	2001-09-26
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Escherichia coli
Macromolecule	DNA Polymerase III, BETA CHAIN (protein) DNA Polymerase III, DELTA SUBUNIT (protein)

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1JR3 \| pdb_00001jr3	Download File View File

Crystal Structure of the Processivity Clamp Loader Gamma Complex of E. coli DNA Polymerase III

Jeruzalmi, D., O'Donnell, M., Kuriyan, J.

(2001) Cell 106: 429-441

Released	2001-09-26
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Escherichia coli
Macromolecule	DNA polymerase III subunit gamma (protein) DNA polymerase III, delta subunit (protein) DNA polymerase III, delta' subunit (protein)
Unique Ligands	SO4, ZN

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1NJF \| pdb_00001njf	Download File View File

Nucleotide bound form of an isolated E. coli clamp loader gamma subunit

Podobnik, M., Weitze, T.F., O'Donnell, M., Kuriyan, J.

(2003) Structure 11: 253-263

Released	2003-04-08
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Escherichia coli
Macromolecule	DNA polymerase III subunit gamma (protein)
Unique Ligands	ADP, AGS, ZN

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1NJG \| pdb_00001njg	Download File View File

Nucleotide-free form of an Isolated E. coli Clamp Loader Gamma Subunit

Podobnik, M., Weitze, T.F., O'Donnell, M., Kuriyan, J.

(2003) Structure 11: 253-263

Released	2003-04-01
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Escherichia coli
Macromolecule	DNA polymerase III subunit gamma (protein)
Unique Ligands	SO4, ZN

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1SXJ \| pdb_00001sxj	Download File View File

Crystal Structure of the Eukaryotic Clamp Loader (Replication Factor C, RFC) Bound to the DNA Sliding Clamp (Proliferating Cell Nuclear Antigen, PCNA)

Bowman, G.D., O'Donnell, M., Kuriyan, J.

(2004) Nature 429: 724-730

Released	2004-06-22
Method	X-RAY DIFFRACTION 2.85 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Unique protein chains: 6
Unique Ligands	ADP, AGS, MG

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1XXH \| pdb_00001xxh	Download File View File

ATPgS Bound E. Coli Clamp Loader Complex

Kazmirski, S.L., Podobnik, M., Weitze, T.F., O'Donnell, M., Kuriyan, J.

(2004) Proc Natl Acad Sci U S A 101: 16750-16755

Released	2004-12-07
Method	X-RAY DIFFRACTION 3.45 Å
Organisms	Escherichia coli
Macromolecule	DNA polymerase III subunit gamma (protein) DNA polymerase III, delta prime subunit (protein) DNA polymerase III, delta subunit (protein)
Unique Ligands	AGS, PO4, ZN

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1XXI \| pdb_00001xxi	Download File View File

ADP Bound E. coli Clamp Loader Complex

Kazmirski, S.L., Podobnik, M., Weitze, T.F., O'Donnell, M., Kuriyan, J.

(2004) Proc Natl Acad Sci U S A 101: 16750-16755

Released	2004-12-07
Method	X-RAY DIFFRACTION 4.1 Å
Organisms	Escherichia coli
Macromolecule	DNA polymerase III subunit gamma (protein) DNA polymerase III, delta prime subunit (protein) DNA polymerase III, delta subunit (protein)
Unique Ligands	ADP, PO4, ZN

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2AVT \| pdb_00002avt	Download File View File

Crystal structure of the beta subunit from DNA polymerase of Streptococcus pyogenes

Argiriadi, M.A., Goedken, E.R., Bruck, I., O'donnell, M., Kuriyan, J.

(2006) BMC Struct Biol 6: 2-2

Released	2006-01-24
Method	X-RAY DIFFRACTION 2 Å
Organisms	Streptococcus pyogenes
Macromolecule	DNA polymerase III beta subunit (protein)

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2HNH \| pdb_00002hnh	Download File View File

Crystal structure of the catalytic alpha subunit of E. coli replicative DNA polymerase III

Meindert, M.H., Georgescu, R.E., Lee, S., O'Donnell, M., Kuriyan, J.

(2006) Cell 126: 881-892

Released	2006-09-19
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Escherichia coli
Macromolecule	DNA polymerase III alpha subunit (protein)
Unique Ligands	PO4

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2HQA \| pdb_00002hqa	Download File View File

Crystal structure of the catalytic alpha subunit of E. Coli replicative DNA polymerase III

Lamers, M.H., Georgescu, R.E., Lee, S.G., O'Donnell, M., Kuriyan, J.

(2006) Cell 126: 881-892

Released	2006-09-19
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Escherichia coli
Macromolecule	DNA polymerase III alpha subunit (protein)
Unique Ligands	PO4

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3BEP \| pdb_00003bep	Download File View File

Structure of a sliding clamp on DNA

Georgescu, R.E., Kim, S.S., Yurieva, O., Kuriyan, J., Kong, X.-P., O'Donnell, M.

(2008) Cell 132: 43-54

Released	2008-01-29
Method	X-RAY DIFFRACTION 1.92 Å
Organisms	Escherichia coli
Macromolecule	DNA polymerase III subunit beta (protein) DNA (5'-D(DTPDTPDTPDTPDAPDTPDAPDCPDGPDAPDTPDGPDGPDG)-3') (nucleic acid) DNA (5'-D(PDCPDCPDCPDAPDTPDCPDGPDTPDAPDT)-3') (nucleic acid)
Unique Ligands	5CY

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3D1E \| pdb_00003d1e	Download File View File

Crystal structure of E. coli sliding clamp (beta) bound to a polymerase II peptide

Georgescu, R.E., Yurieva, O., Seung-Sup, K., Kuriyan, J., Kong, X.-P., O'Donnell, M.

(2008) Proc Natl Acad Sci U S A 105: 11116-11121

Released	2008-07-29
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Escherichia coli
Macromolecule	DNA polymerase III subunit beta (protein) decamer from polymerase II C-terminal (protein)

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3D1F \| pdb_00003d1f	Download File View File

Crystal structure of E. coli sliding clamp (beta) bound to a polymerase III peptide

Georgescu, R.E., Yurieva, O., Seung-Sup, K., Kuriyan, J., Kong, X.-P., O'Donnell, M.

(2008) Proc Natl Acad Sci U S A 105: 11116-11121

Released	2008-07-29
Method	X-RAY DIFFRACTION 2 Å
Organisms	Escherichia coli
Macromolecule	DNA polymerase III subunit beta (protein) Nonapeptide from polymerase III C-terminal (protein)
Unique Ligands	323, PEG

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3D1G \| pdb_00003d1g	Download File View File

Structure of a small molecule inhibitor bound to a DNA sliding clamp

Georgescu, R.E., Yurieva, O., Seung-Sup, K., Kuriyan, J., Kong, X.-P., O'Donnell, M.

(2008) Proc Natl Acad Sci U S A 105: 11116-11121

Released	2008-07-29
Method	X-RAY DIFFRACTION 1.64 Å
Organisms	Escherichia coli
Macromolecule	DNA polymerase III subunit beta (protein)
Unique Ligands	322

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3U5Z \| pdb_00003u5z	Download File View File

Structure of T4 Bacteriophage clamp loader bound to the T4 clamp, primer-template DNA, and ATP analog

Kelch, B.A., Makino, D.L., O'Donnell, M., Kuriyan, J.

(2011) Science 334: 1675-1680

Released	2012-01-04
Method	X-RAY DIFFRACTION 3.5 Å
Organisms	Tequatrovirus T4
Macromolecule	DNA polymerase accessory protein 44 (protein) DNA polymerase accessory protein 62 (protein) DNA polymerase processivity component (protein) Primer DNA strand (nucleic acid) Template DNA strand (nucleic acid)
Unique Ligands	08T, ADP, MG

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3U60 \| pdb_00003u60	Download File View File

Structure of T4 Bacteriophage Clamp Loader Bound To Open Clamp, DNA and ATP Analog

Kelch, B.A., Makino, D.L., O'Donnell, M., Kuriyan, J.

(2011) Science 334: 1675-1680

Released	2012-01-04
Method	X-RAY DIFFRACTION 3.34 Å
Organisms	Tequatrovirus T4
Macromolecule	DNA polymerase accessory protein 44 (protein) DNA polymerase accessory protein 62 (protein) DNA polymerase processivity component (protein) Primer DNA strand (nucleic acid) Template DNA strand (nucleic acid)
Unique Ligands	08T, ADP, MG

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3U61 \| pdb_00003u61	Download File View File

Structure of T4 Bacteriophage Clamp Loader Bound To Closed Clamp, DNA and ATP Analog and ADP

Kelch, B.A., Makino, D.L., O'Donnell, M., Kuriyan, J.

(2011) Science 334: 1675-1680

Released	2012-01-04
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Tequatrovirus T4
Macromolecule	DNA polymerase accessory protein 44 (protein) DNA polymerase accessory protein 62 (protein) DNA polymerase processivity component (protein) Primer DNA strand (nucleic acid) Template DNA strand (nucleic acid)
Unique Ligands	08T, ADP, MG

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4JOM \| pdb_00004jom	Download File View File

Structure of E. coli Pol III 3mPHP mutant

Barros, T., Guenther, J., Kelch, B., Anaya, J., Prabhakar, A., O'Donnell, M., Kuriyan, J., Lamers, M.H.

(2013) BMC Struct Biol 13: 8-8

Released	2013-05-29
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Escherichia coli K-12
Macromolecule	DNA polymerase III subunit alpha (protein)
Unique Ligands	GOL, PO4, ZN

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6U0M \| pdb_00006u0m	Download File View File

Structure of the S. cerevisiae replicative helicase CMG in complex with a forked DNA

Yuan, Z., Georgescu, R., Bai, L., Zhang, D., O'Donnell, M., Li, H.

(2020) Nat Commun 11: 688

Released	2020-03-25
Method	ELECTRON MICROSCOPY 3.9 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Unique protein chains: 11 Unique nucleic acid chains: 2
Unique Ligands	ATP

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6WJV \| pdb_00006wjv	Download File View File

Structure of the Saccharomyces cerevisiae polymerase epsilon holoenzyme

Yuan, Z., Georgescu, R., Schauer, G.D., O'Donnell, M., Li, H.

(2020) Nat Commun 11: 3156

Released	2020-07-08
Method	ELECTRON MICROSCOPY 3.5 Å
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	DNA polymerase epsilon catalytic subunit A (protein) DNA polymerase epsilon subunit B (protein) DNA polymerase epsilon subunit C (protein) DNA polymerase epsilon subunit D (protein)
Unique Ligands	ZN

1 to 25 of 39 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

1A5T | pdb_00001a5t

1CZD | pdb_00001czd

1EM8 | pdb_00001em8

1EQN | pdb_00001eqn

1JQJ | pdb_00001jqj

1JQL | pdb_00001jql

1JR3 | pdb_00001jr3

1NJF | pdb_00001njf

1NJG | pdb_00001njg

1SXJ | pdb_00001sxj

1XXH | pdb_00001xxh

1XXI | pdb_00001xxi

2AVT | pdb_00002avt

2HNH | pdb_00002hnh

2HQA | pdb_00002hqa

3BEP | pdb_00003bep

3D1E | pdb_00003d1e

3D1F | pdb_00003d1f

3D1G | pdb_00003d1g

3U5Z | pdb_00003u5z

3U60 | pdb_00003u60

3U61 | pdb_00003u61

4JOM | pdb_00004jom

6U0M | pdb_00006u0m

6WJV | pdb_00006wjv