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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Jeruzalmi, D."

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Search Summary

This query matches 19 Structures.

Refinements

Structure Determination Methodology

experimental (19)

Scientific Name of Source Organism

	Escherichia coli (3)
	Vibrio cholerae (3)
	Desulfurococcus sp. Tok (2)
	Escherichia phage T7 (2)
	Geobacillus sp. Y412MC52 (2)
	Homo sapiens (2)
	Escherichia coli O111:NM (1)
	Geobacillus stearothermophilus (1)
	Geobacillus stearothermophilus 10 (1)
	Lambdavirus lambda (1)

More...

Taxonomy

	Bacteria (12)
	Duplodnaviria (4)
	Archaea (2)
	Eukaryota (2)

Experimental Method

	X-RAY DIFFRACTION (18)
	ELECTRON MICROSCOPY (1)

Polymer Entity Type

	Protein (19)
	DNA (2)

Refinement Resolution (Å)

	1.5 - 2.0 (1)
	2.0 - 2.5 (8)
	2.5 - 3.0 (7)
	3.0 - 3.5 (1)
	4.0 - 4.5 (2)

Release Date

	1995 - 1999 (4)
	2000 - 2004 (5)
	2005 - 2009 (2)
	2010 - 2014 (2)
	2015 - 2019 (5)
	2020 - 2024 (1)

Enzyme Classification Name

	Transferases (8)
	Hydrolases (2)
	Isomerases (1)

Symmetry Type

	Asymmetric (13)
	Cyclic (6)

SCOP Classification

	Alpha and beta proteins (a/b) (5)
	All alpha proteins (3)
	Alpha and beta proteins (a+b) (5)
	Multi-domain proteins (alpha and beta) (4)
	All beta proteins (1)

AllSelected

1 to 19 of 19 Structures

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1ARO \| pdb_00001aro	Download File View File

T7 RNA POLYMERASE COMPLEXED WITH T7 LYSOZYME

Steitz, T., Jeruzalmi, D.

(1998) EMBO J 17: 4101-4113

Released	1998-10-21
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Escherichia phage T7
Macromolecule	T7 LYSOZYME (protein) T7 RNA POLYMERASE (protein)
Unique Ligands	HG

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1BF5 \| pdb_00001bf5	Download File View File

TYROSINE PHOSPHORYLATED STAT-1/DNA COMPLEX

Kuriyan, J., Zhao, Y., Chen, X., Vinkemeier, U., Jeruzalmi, D., Darnell Jr., J.E.

(1998) Cell 93: 827-839

Released	1998-08-12
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Homo sapiens
Macromolecule	SIGNAL TRANSDUCER AND ACTIVATOR OF TRANSCRIPTION 1-ALPHA/BETA (protein) DNA (5'-D(APCPAPGPTPTPTPCPCPCPGPTPAPAPAPTPG PC)-3') (nucleic acid) DNA (5'-D(TPGPCPAPTPTPTPAPCPGPGPGPAPAPAPCPT PG)-3') (nucleic acid)

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1CEZ \| pdb_00001cez	Download File View File

CRYSTAL STRUCTURE OF A T7 RNA POLYMERASE-T7 PROMOTER COMPLEX

Cheetham, G.M.T., Jeruzalmi, D., Steitz, T.A.

(1999) Nature 399: 80-83

Released	1999-05-21
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Escherichia phage T7
Macromolecule	PROTEIN (BACTERIOPHAGE T7 RNA POLYMERASE) (protein) DNA (5'-D(PTPAPAPTPAPCPGPAPCPTPCPAPCPTPA)-3') (nucleic acid) DNA (5'-D(PTPAPTPAPGPTPGPAPGPTPCPGPTPAPTPTPA)-3') (nucleic acid)

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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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1D5A \| pdb_00001d5a	Download File View File

CRYSTAL STRUCTURE OF AN ARCHAEBACTERIAL DNA POLYMERASE D.TOK. DEPOSITION OF SECOND NATIVE STRUCTURE AT 2.4 ANGSTROM

Zhao, Y., Jeruzalmi, D., Leighton, L., Lasken, R., Kuriyan, J.

(1999) Structure 7: 1189-1199

Released	2000-03-24
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Desulfurococcus sp. Tok
Macromolecule	PROTEIN (DNA POLYMERASE) (protein)
Unique Ligands	MG, SO4

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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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1QQC \| pdb_00001qqc	Download File View File

CRYSTAL STRUCTURE OF AN ARCHAEBACTERIAL DNA POLYMERASE D.TOK

Zhao, Y., Jeruzalmi, D., Leighton, L., Lasken, R., Kuriyan, J.

(1999) Structure 7: 1189-1199

Released	1999-10-14
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Desulfurococcus sp. Tok
Macromolecule	DNA POLYMERASE II (protein)
Unique Ligands	MG, SO4

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2R6F \| pdb_00002r6f	Download File View File

Crystal Structure of Bacillus stearothermophilus UvrA

Inuzuka, Y., Pakotiprapha, D., Bowman, B.R., Jeruzalmi, D., Verdine, G.L.

(2008) Mol Cell 29: 122-133

Released	2008-01-08
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Geobacillus stearothermophilus 10
Macromolecule	Excinuclease ABC subunit A (protein)
Unique Ligands	ADP, ZN

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3FPN \| pdb_00003fpn	Download File View File

Crystal structure of UvrA-UvrB interaction domains

Pakotiprapha, D., Verdine, G.L., Jeruzalmi, D.

(2009) J Biological Chem 284: 12837-12844

Released	2009-03-24
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Geobacillus stearothermophilus
Macromolecule	Geobacillus stearothermophilus UvrA interaction domain (protein) Geobacillus stearothermophilus UvrB interaction domain (protein)

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3UWX \| pdb_00003uwx	Download File View File

Crystal structure of UvrA-UvrB complex

Pakotiprapha, D., Jeruzalmi, D.

(2012) Nat Struct Mol Biol 19: 291-298

Released	2012-02-08
Method	X-RAY DIFFRACTION 4.398 Å
Organisms	Geobacillus sp. Y412MC52
Macromolecule	Excinuclease ABC, A subunit (protein) UvrABC system protein B (protein)
Unique Ligands	ZN

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3UX8 \| pdb_00003ux8	Download File View File

Crystal structure of UvrA

Samuels, M.A., Pakotiprapha, D., Jeruzalmi, D.

(2012) Nat Struct Mol Biol 19: 291-298

Released	2012-02-08
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Geobacillus sp. Y412MC52
Macromolecule	Excinuclease ABC, A subunit (protein)
Unique Ligands	ADP, ZN

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5UBD \| pdb_00005ubd	Download File View File

Crystal structure of the N-terminal domain (domain 1) of RctB, RctB-1-124-L48M

Orlova, N., Ivashkiv, O., Waldor, M.K., Jeruzalmi, D.

(2017) Nucleic Acids Res 45: 3724-3737

Released	2017-01-11
Method	X-RAY DIFFRACTION 2.002 Å
Organisms	Vibrio cholerae
Macromolecule	RctB replication initiator protein (protein)

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5UBE \| pdb_00005ube	Download File View File

Crystal structure of the N-terminal domain (domain 1) of RctB

Orlova, N., Ivashkiv, O., Waldor, M.K., Jeruzalmi, D.

(2017) Nucleic Acids Res 45: 3724-3737

Released	2017-01-11
Method	X-RAY DIFFRACTION 2 Å
Organisms	Vibrio cholerae
Macromolecule	RctB replication initiator protein (protein)

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5UBF \| pdb_00005ubf	Download File View File

Crystal structure of the RctB domains 2-3, RctB-155-483

Orlova, N., Waldor, M.K., Jeruzalmi, D.

(2017) Nucleic Acids Res 45: 3724-3737

Released	2017-01-11
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Vibrio cholerae
Macromolecule	RctB replication initiator protein (protein)

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6BBM \| pdb_00006bbm	Download File View File

Mechanisms of Opening and Closing of the Bacterial Replicative Helicase: The DnaB Helicase and Lambda P Helicase Loader Complex

Chase, J., Catalano, A., Noble, A.J., Eng, E.T., Olinares, P.D.B., Molloy, K., Pakotiprapha, D., Samuels, M., Chain, B., des Georges, A., Jeruzalmi, D.

(2018) Elife 7:

Released	2019-03-06
Method	ELECTRON MICROSCOPY 4.1 Å
Organisms	Escherichia coli O111:NM Lambdavirus lambda
Macromolecule	Replication protein P (protein) Replicative DNA helicase (protein)
Unique Ligands	ADP

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6N9L \| pdb_00006n9l	Download File View File

Crystal structure of T. maritima UvrA d117-399 with ADP

Hartley, S., Case, B., Osuga, M., Hingorani, M.M., Jeruzalmi, D.

(2019) Nucleic Acids Res 47: 4136-4152

Released	2019-05-01
Method	X-RAY DIFFRACTION 2.01 Å
Organisms	Thermotoga maritima
Macromolecule	UvrABC system protein A (protein)
Unique Ligands	ADP, ZN

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7SHQ \| pdb_00007shq	Download File View File

Structure of a functional construct of eukaryotic elongation factor 2 kinase in complex with calmodulin.

Piserchio, A., Isiorho, E.A., Jeruzalmi, D., Dalby, K.N., Ghose, R.

(2022) Sci Adv 8: eabo2039-eabo2039

Released	2022-04-06
Method	X-RAY DIFFRACTION 2.34 Å
Organisms	Homo sapiens
Macromolecule	Calmodulin-1 (protein) Eukaryotic elongation factor 2 kinase,Eukaryotic elongation factor 2 kinase (protein)
Unique Ligands	CA, MG, ZN

1 to 19 of 19 Structures

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.

1ARO | pdb_00001aro

T7 RNA POLYMERASE COMPLEXED WITH T7 LYSOZYME

1BF5 | pdb_00001bf5

TYROSINE PHOSPHORYLATED STAT-1/DNA COMPLEX

1CEZ | pdb_00001cez

CRYSTAL STRUCTURE OF A T7 RNA POLYMERASE-T7 PROMOTER COMPLEX

1CZD | pdb_00001czd

CRYSTAL STRUCTURE OF THE PROCESSIVITY CLAMP GP45 FROM BACTERIOPHAGE T4

1D5A | pdb_00001d5a

CRYSTAL STRUCTURE OF AN ARCHAEBACTERIAL DNA POLYMERASE D.TOK. DEPOSITION OF SECOND NATIVE STRUCTURE AT 2.4 ANGSTROM

1JQJ | pdb_00001jqj

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

1JQL | pdb_00001jql

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)

1JR3 | pdb_00001jr3

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

1QQC | pdb_00001qqc

CRYSTAL STRUCTURE OF AN ARCHAEBACTERIAL DNA POLYMERASE D.TOK

2R6F | pdb_00002r6f

Crystal Structure of Bacillus stearothermophilus UvrA

3FPN | pdb_00003fpn

Crystal structure of UvrA-UvrB interaction domains

3UWX | pdb_00003uwx

Crystal structure of UvrA-UvrB complex

3UX8 | pdb_00003ux8

Crystal structure of UvrA

5UBD | pdb_00005ubd

Crystal structure of the N-terminal domain (domain 1) of RctB, RctB-1-124-L48M

5UBE | pdb_00005ube

Crystal structure of the N-terminal domain (domain 1) of RctB

5UBF | pdb_00005ubf

Crystal structure of the RctB domains 2-3, RctB-155-483

6BBM | pdb_00006bbm

Mechanisms of Opening and Closing of the Bacterial Replicative Helicase: The DnaB Helicase and Lambda P Helicase Loader Complex

6N9L | pdb_00006n9l

Crystal structure of T. maritima UvrA d117-399 with ADP

7SHQ | pdb_00007shq

Structure of a functional construct of eukaryotic elongation factor 2 kinase in complex with calmodulin.

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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

1ARO | pdb_00001aro

1BF5 | pdb_00001bf5

1CEZ | pdb_00001cez

1CZD | pdb_00001czd

1D5A | pdb_00001d5a

1JQJ | pdb_00001jqj

1JQL | pdb_00001jql

1JR3 | pdb_00001jr3

1QQC | pdb_00001qqc

2R6F | pdb_00002r6f

3FPN | pdb_00003fpn

3UWX | pdb_00003uwx

3UX8 | pdb_00003ux8

5UBD | pdb_00005ubd

5UBE | pdb_00005ube

5UBF | pdb_00005ubf

6BBM | pdb_00006bbm

6N9L | pdb_00006n9l

7SHQ | pdb_00007shq