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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Berger, J.M."

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Search Summary

This query matches 143 Structures.

Refinements

Structure Determination Methodology

experimental (143)

Scientific Name of Source Organism

	Escherichia coli (23)
	Saccharomyces cerevisiae (17)
	synthetic construct (15)
	Mycobacterium tuberculosis H37Rv (13)
	Staphylococcus aureus (12)
	Nematostella vectensis (7)
	Saccharolobus shibatae (7)
	Aquifex aeolicus (6)
	Escherichia coli K-12 (6)
	Klebsiella pneumoniae (6)

More...

Taxonomy

	Bacteria (87)
	Eukaryota (40)
	other sequences (15)
	Archaea (11)
	Riboviria (3)
	Monodnaviria (1)

Experimental Method

	X-RAY DIFFRACTION (137)
	ELECTRON MICROSCOPY (6)

Polymer Entity Type

	Protein (142)
	DNA (25)
	RNA (14)

Refinement Resolution (Å)

	1.0 - 1.5 (3)
	1.5 - 2.0 (34)
	2.0 - 2.5 (46)
	2.5 - 3.0 (27)
	3.0 - 3.5 (23)
	3.5 - 4.0 (7)
	4.0 - 4.5 (3)

Release Date

	1995 - 1999 (10)
	2000 - 2004 (27)
	2005 - 2009 (35)
	2010 - 2014 (34)
	2015 - 2019 (31)
	2020 - 2024 (6)

Enzyme Classification Name

	Isomerases (41)
	Hydrolases (41)
	Transferases (25)
	Ligases (1)
	Oxidoreductases (1)

Symmetry Type

	Asymmetric (76)
	Cyclic (60)
	Helical (5)
	Dihedral (3)

SCOP Classification

	Alpha and beta proteins (a+b) (31)
	Alpha and beta proteins (a/b) (24)
	All alpha proteins (19)
	All beta proteins (20)
	Artifacts (12)
	Multi-domain proteins (alpha and beta) (15)
	Coiled coil proteins (1)
	Small proteins (1)

AllSelected

1 to 25 of 143 Structures

Page 1 of 6

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1A8V \| pdb_00001a8v	Download File View File

STRUCTURE OF THE RNA-BINDING DOMAIN OF THE RHO TRANSCRIPTION TERMINATOR

Fass, D., Bogden, C., Berger, J.M.

(1999) Mol Cell 3: 487-493

Released	1999-05-04
Method	X-RAY DIFFRACTION 2 Å
Organisms	Escherichia coli
Macromolecule	TRANSCRIPTION TERMINATION FACTOR RHO (protein)
Unique Ligands	CU

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1AIK \| pdb_00001aik	Download File View File

HIV GP41 CORE STRUCTURE

Chan, D.C., Fass, D., Berger, J.M., Kim, P.S.

(1997) Cell 89: 263-273

Released	1997-06-16
Method	X-RAY DIFFRACTION 2 Å
Organisms	HIV-1 M:B_HXB2R
Macromolecule	HIV-1 GP41 GLYCOPROTEIN (protein)

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1AJJ \| pdb_00001ajj	Download File View File

LDL RECEPTOR LIGAND-BINDING MODULE 5, CALCIUM-COORDINATING

Fass, D., Blacklow, S.C., Kim, P.S., Berger, J.M.

(1997) Nature 388: 691-693

Released	1997-07-07
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Homo sapiens
Macromolecule	LOW-DENSITY LIPOPROTEIN RECEPTOR (protein)
Unique Ligands	CA, SO4

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1AOL \| pdb_00001aol	Download File View File

FRIEND MURINE LEUKEMIA VIRUS RECEPTOR-BINDING DOMAIN

Fass, D., Davey, R.A., Hamson, C.A., Kim, P.S., Cunningham, J.M., Berger, J.M.

(1997) Science 277: 1662-1666

Released	1997-10-15
Method	X-RAY DIFFRACTION 2 Å
Organisms	Friend murine leukemia virus
Macromolecule	GP70 (protein)
Unique Ligands	NAG, ZN

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1B79 \| pdb_00001b79	Download File View File

N-TERMINAL DOMAIN OF DNA REPLICATION PROTEIN DNAB

Fass, D., Bogden, C.E., Berger, J.M.

(1999) Structure 7: 691-698

Released	1999-06-30
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Escherichia coli
Macromolecule	DnaB Helicase (protein)

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1BGW \| pdb_00001bgw	Download File View File

TOPOISOMERASE RESIDUES 410-1202,

Berger, J.M., Gamblin, S.J., Harrison, S.C., Wang, J.C.

(1996) Nature 379: 225-232

Released	1996-07-11
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	TOPOISOMERASE (protein)

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1BJT \| pdb_00001bjt	Download File View File

TOPOISOMERASE II RESIDUES 409-1201

Fass, D., Bogden, C.E., Berger, J.M.

(1999) Nat Struct Biol 6: 322-326

Released	1999-05-04
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	TOPOISOMERASE II (protein)

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1D3Y \| pdb_00001d3y	Download File View File

STRUCTURE OF THE DNA TOPOISOMERASE VI A SUBUNIT

Nichols, M.D., DeAngelis, K.A., Keck, J.L., Berger, J.M.

(1999) EMBO J 18: 6177-6188

Released	1999-11-05
Method	X-RAY DIFFRACTION 2 Å
Organisms	Methanocaldococcus jannaschii
Macromolecule	DNA TOPOISOMERASE VI A SUBUNIT (protein)
Unique Ligands	MG, NA

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1DD9 \| pdb_00001dd9	Download File View File

STRUCTURE OF THE DNAG CATALYTIC CORE

Keck, J.L., Roche, D.D., Lynch, A.S., Berger, J.M.

(2000) Science 287: 2482-2486

Released	2000-04-07
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Escherichia coli
Macromolecule	DNA PRIMASE (protein)
Unique Ligands	SR

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1DDE \| pdb_00001dde	Download File View File

STRUCTURE OF THE DNAG CATALYTIC CORE

Keck, J.L., Roche, D.D., Lynch, A.S., Berger, J.M.

(2000) Science 287: 2482-2486

Released	2000-04-07
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Escherichia coli
Macromolecule	DNA PRIMASE (protein)
Unique Ligands	Y1

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1DSX \| pdb_00001dsx	Download File View File

KV1.2 T1 DOMAIN, RESIDUES 33-119, T46V MUTANT

Minor Jr., D.L., Lin, Y.-F., Mobley, B.C., Avelar, A., Jan, Y.N., Jan, L.Y., Berger, J.M.

(2000) Cell 102: 657-670

Released	2000-09-20
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Rattus norvegicus
Macromolecule	PROTEIN (KV1.2 VOLTAGE-GATED POTASSIUM CHANNEL) (protein)

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1F21 \| pdb_00001f21	Download File View File

DIVALENT METAL COFACTOR BINDING IN THE KINETIC FOLDING TRAJECTORY OF E. COLI RIBONUCLEASE HI

Goedken, E.R., Keck, J.L., Berger, J.M., Marqusee, S.

(2000) Protein Sci 9: 1914-1921

Released	2000-12-06
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Escherichia coli
Macromolecule	RIBONUCLEASE HI (protein)

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1FNN \| pdb_00001fnn	Download File View File

CRYSTAL STRUCTURE OF CDC6P FROM PYROBACULUM AEROPHILUM

Liu, J., Smith, C.L., DeRyckere, D., DeAngelis, K., Martin, G.S., Berger, J.M.

(2000) Mol Cell 6: 637-648

Released	2000-10-04
Method	X-RAY DIFFRACTION 2 Å
Organisms	Pyrobaculum aerophilum
Macromolecule	CELL DIVISION CONTROL PROTEIN 6 (protein)
Unique Ligands	ADP, MG

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1JL2 \| pdb_00001jl2	Download File View File

Crystal structure of TCEO RNase H-a chimera combining the folding core from T. thermophilus RNase H and the remaining region of E. coli RNase H

Robic, S., Berger, J.M., Marqusee, S.

(2002) Protein Sci 11: 381-389

Released	2002-01-18
Method	X-RAY DIFFRACTION 1.76 Å
Organisms	Escherichia coli K-12 Thermus thermophilus HB8
Macromolecule	Chimera of Ribonuclease HI, Ribonuclease H (protein)

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1L8Q \| pdb_00001l8q	Download File View File

CRYSTAL STRUCTURE OF DNA REPLICATION INITIATION FACTOR

Erzberger, J.P., Pirruccello, M.M., Berger, J.M.

(2002) EMBO J 21: 4763-4773

Released	2002-09-25
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Aquifex aeolicus
Macromolecule	Chromosomal replication initiator protein dnaA (protein)
Unique Ligands	ADP, MG

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1MU5 \| pdb_00001mu5	Download File View File

Structure of topoisomerase subunit

Corbett, K.D., Berger, J.M.

(2003) EMBO J 22: 151-163

Released	2003-01-07
Method	X-RAY DIFFRACTION 2 Å
Organisms	Saccharolobus shibatae
Macromolecule	Type II DNA topoisomerase VI Subunit B (protein)
Unique Ligands	CA

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1MX0 \| pdb_00001mx0	Download File View File

Structure of topoisomerase subunit

Corbett, K.D., Berger, J.M.

(2003) EMBO J 22: 151-163

Released	2003-01-07
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Saccharolobus shibatae
Macromolecule	Type II DNA topoisomerase VI subunit B (protein)
Unique Ligands	ANP, MG, NA

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1PV4 \| pdb_00001pv4	Download File View File

X-ray crystal structure of the Rho transcription termination factor in complex with single stranded DNA

Skordalakes, E., Berger, J.M.

(2003) Cell 114: 135-146

Released	2003-07-22
Method	X-RAY DIFFRACTION 3 Å
Organisms	Escherichia coli
Macromolecule	Transcription termination factor rho (protein) 5'-D(PCPC)-3' (nucleic acid)

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1PVG \| pdb_00001pvg	Download File View File

Crystal Structure of the ATPase region of Saccharomyces Cerevisiae topoisomerase II

Classen, S., Olland, S., Berger, J.M.

(2003) Proc Natl Acad Sci U S A 100: 10629-10634

Released	2003-08-26
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	DNA topoisomerase II (protein)
Unique Ligands	ANP, MG

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1PVO \| pdb_00001pvo	Download File View File

X-ray crystal structure of Rho transcription termination factor in complex with ssRNA substrate and ANPPNP

Skordalakes, E., Berger, J.M.

(2003) Cell 114: 135-146

Released	2003-07-22
Method	X-RAY DIFFRACTION 3 Å
Organisms	Escherichia coli
Macromolecule	Transcription termination factor rho (protein) 5'-R(PUPC)-3' (nucleic acid)
Unique Ligands	ANP

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1QDV \| pdb_00001qdv	Download File View File

N-TERMINAL DOMAIN, VOLTAGE-GATED POTASSIUM CHANNEL KV1.2 RESIDUES 33-131

Minor Jr., D.L., Lin, Y.-F., Mobley, B.C., Yu, M., Jan, Y.N., Jan, L.Y., Berger, J.M.

(2000) Cell 102: 657-670

Released	2000-09-20
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Rattus norvegicus
Macromolecule	KV1.2 VOLTAGE-GATED POTASSIUM CHANNEL (protein)

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1QDW \| pdb_00001qdw	Download File View File

N-TERMINAL DOMAIN, VOLTAGE-GATED POTASSIUM CHANNEL KV1.2 RESIDUES 33-119

Minor Jr., D.L., Lin, Y.-F., Mobley, B.C., Avelar, A., Jan, Y.N., Jan, L.Y., Berger, J.M.

(2000) Cell 102: 657-670

Released	2000-09-20
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Rattus norvegicus
Macromolecule	KV1.2 VOLTAGE-GATED POTASSIUM CHANNEL (protein)

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1QZR \| pdb_00001qzr	Download File View File

CRYSTAL STRUCTURE OF THE ATPASE REGION OF SACCHAROMYCES CEREVISIAE TOPOISOMERASE II BOUND TO ICRF-187 (DEXRAZOXANE)

Classen, S., Olland, S., Berger, J.M.

(2003) Proc Natl Acad Sci U S A 100: 10629-10634

Released	2003-09-30
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	DNA topoisomerase II (protein)
Unique Ligands	ANP, CDX, MG