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232,829 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Gerdes, K."

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Search Summary

This query matches 22 Structures.

Refinements

Structure Determination Methodology

experimental (22)

Scientific Name of Source Organism

	Escherichia coli K-12 (5)
	Escherichia coli (4)
	Escherichia coli O127:H6 str. E2348/69 (3)
	Lama glama (3)
	Vibrio cholerae O1 biovar El Tor str. N16961 (3)
	Thermus thermophilus (2)
	Thermus thermophilus HB8 (2)
	Vibrio cholerae (2)
	Escherichia coli 2-210-07_S3_C3 (1)
	Escherichia coli 2-222-05_S4_C3 (1)

More...

Taxonomy

	Bacteria (21)
	Eukaryota (3)
	Duplodnaviria (1)

Experimental Method

X-RAY DIFFRACTION (22)

Polymer Entity Type

	Protein (22)
	RNA (2)

Refinement Resolution (Å)

	1.5 - 2.0 (4)
	2.0 - 2.5 (8)
	2.5 - 3.0 (7)
	3.0 - 3.5 (2)
	3.5 - 4.0 (1)

Release Date

	2000 - 2004 (2)
	2005 - 2009 (3)
	2010 - 2014 (4)
	2015 - 2019 (10)
	2020 - 2024 (3)

Enzyme Classification Name

	Hydrolases (7)
	Transferases (2)

Symmetry Type

	Asymmetric (10)
	Cyclic (12)
	Dihedral (1)

SCOP Classification

	Artifacts (5)
	All beta proteins (3)
	Alpha and beta proteins (a/b) (4)
	Alpha and beta proteins (a+b) (2)
	Membrane and cell surface proteins and peptides (2)

AllSelected

1 to 22 of 22 Structures

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1MWK	Download File View File

ParM from plasmid R1 APO form

Van den Ent, F., Moller-Jensen, J., Amos, L.A., Gerdes, K., Lowe, J.

(2002) EMBO J 21: 6935-6943

Released	2003-01-28
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Escherichia coli
Macromolecule	ParM (protein)

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1MWM	Download File View File

ParM from plasmid R1 ADP form

Van den Ent, F., Moller-Jensen, J., Amos, L.A., Gerdes, K., Lowe, J.

(2002) EMBO J 21: 6935-6943

Released	2003-01-28
Method	X-RAY DIFFRACTION 2 Å
Organisms	Escherichia coli
Macromolecule	ParM (protein)
Unique Ligands	ADP, MG

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2JD3	Download File View File

ParR from plasmid pB171

Moller-Jensen, J., Lowe, J.

(2007) EMBO J 26: 4413

Released	2007-10-09
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Escherichia coli
Macromolecule	STBB PROTEIN (protein)

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2JEE	Download File View File

Xray structure of E. coli YiiU

Moller-Jensen, J., Gerdes, K., Lowe, J.

(2008) Mol Microbiol 68: 720

Released	2008-02-05
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Escherichia coli
Macromolecule	CELL DIVISION PROTEIN ZAPB (protein)

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3DD7	Download File View File

Structure of DocH66Y in complex with the C-terminal domain of Phd

Garcia-Pino, A., Loris, R.

(2008) J Biological Chem 283: 30821-30827

Released	2008-09-16
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Escherichia phage P1 Punavirus P1
Macromolecule	Death on curing protein (protein) Prevent host death protein (protein)
Unique Ligands	BR

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3TND	Download File View File

Crystal structure of Shigella flexneri VapBC toxin-antitoxin complex

Dienemann, C., Boggild, A., Winther, K.S., Gerdes, K., Brodersen, D.E.

(2011) J Mol Biology 414: 713-722

Released	2011-11-02
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Shigella flexneri
Macromolecule	Antitoxin VapB (protein) tRNA(fMet)-specific endonuclease VapC (protein)
Unique Ligands	NA, SO4

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4FXI	Download File View File

Crystal structure of the isolated E. coli RelE toxin, P21 form

Brodersen, D.E., Boggild, A., Sofos, N.

(2012) Structure 20: 1641-1648

Released	2012-08-29
Method	X-RAY DIFFRACTION 1.8003 Å
Organisms	Escherichia coli K-12
Macromolecule	mRNA interferase RelE (protein)
Unique Ligands	SO4

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4V7J	Download File View File

Structure of RelE nuclease bound to the 70S ribosome (precleavage state)

Neubauer, C., Gao, Y.-G., Andersen, K.R., Dunham, C.M., Kelley, A.C., Hentschel, J., Gerdes, K., Ramakrishnan, V., Brodersen, D.E.

(2009) Cell 139: 1084-1095

Released	2014-07-09
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Escherichia coli K-12 Thermus thermophilus Thermus thermophilus HB8
Macromolecule	Unique protein chains: 52 Unique nucleic acid chains: 6
Unique Ligands	MG, ZN

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4V7K	Download File View File

Structure of RelE nuclease bound to the 70S ribosome (postcleavage state)

Neubauer, C., Gao, Y.-G., Andersen, K.R., Dunham, C.M., Kelley, A.C., Hentschel, J., Gerdes, K., Ramakrishnan, V., Brodersen, D.E.

(2009) Cell 139: 1084-1095

Released	2014-07-09
Method	X-RAY DIFFRACTION 3.6 Å
Organisms	Escherichia coli K-12 Thermus thermophilus Thermus thermophilus HB8
Macromolecule	Unique protein chains: 52 Unique nucleic acid chains: 6
Unique Ligands	MG, ZN

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5J9I	Download File View File

Crystal structure of the HigA2 antitoxin C-terminal domain

Hadzi, S., Loris, R.

(2017) Nucleic Acids Res 45: 4972-4983

Released	2017-04-05
Method	X-RAY DIFFRACTION 1.797 Å
Organisms	Vibrio cholerae
Macromolecule	Antitoxin igA-2 (protein)

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5JA8	Download File View File

Crystal structure of the HigB2 toxin in complex with Nb2

Hadzi, S., Loris, R.

(2017) Nucleic Acids Res 45: 4972-4983

Released	2017-04-05
Method	X-RAY DIFFRACTION 2.49 Å
Organisms	Lama glama Vibrio cholerae O1 biovar El Tor str. N16961
Macromolecule	Nanobody 2 (protein) Toxin HigB-2 (protein)
Unique Ligands	ACT, EDO, EPE, PDO, PO4

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5JA9	Download File View File

Crystal structure of the HigB2 toxin in complex with Nb6

Hadzi, S., Loris, R.

(2017) Nucleic Acids Res 45: 4972-4983

Released	2017-04-05
Method	X-RAY DIFFRACTION 1.849 Å
Organisms	Lama glama Vibrio cholerae O1 biovar El Tor str. N16961
Macromolecule	Nanobody 6 (protein) Toxin HigB-2 (protein)
Unique Ligands	EDO, SO4

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5JAA	Download File View File

Crystal structure of the HigBA2 toxin-antitoxin complex

Hadzi, S., Loris, R.

(2017) Nucleic Acids Res 45: 4972-4983

Released	2017-04-05
Method	X-RAY DIFFRACTION 2.993 Å
Organisms	Vibrio cholerae O1 biovar El Tor str. N16961
Macromolecule	Antitoxin igA-2 (protein) Toxin HigB-2 (protein)

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5MJE	Download File View File

Crystal structure of the HigB2 toxin in complex with Nb8

Hadzi, S., Loris, R.

(2017) Nucleic Acids Res 45: 4972-4983

Released	2017-04-05
Method	X-RAY DIFFRACTION 2.599 Å
Organisms	Lama glama Vibrio cholerae
Macromolecule	Cytotoxic translational repressor of toxin-antitoxin stability system (protein) Nanobody 8 (protein)
Unique Ligands	PEG, SO4

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6GFL	Download File View File

Crystal structure of the Escherichia coli nucleosidase PpnN (apo form)

Zhang, Y., Baerentsen, R.L., Gerdes, K., Brodersen, D.E.

(2019) Mol Cell 74: 1239

Released	2019-04-24
Method	X-RAY DIFFRACTION 2.48 Å
Organisms	Escherichia coli K-12
Macromolecule	Pyrimidine/purine nucleotide 5'-monophosphate nucleosidase (protein)

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6GFM	Download File View File

Crystal structure of the Escherichia coli nucleosidase PpnN (pppGpp-form)

Zhang, Y., Baerentsen, R.L., Gerdes, K., Brodersen, D.E.

(2019) Mol Cell 74: 1239

Released	2019-04-24
Method	X-RAY DIFFRACTION 2.77 Å
Organisms	Escherichia coli K-12
Macromolecule	Pyrimidine/purine nucleotide 5'-monophosphate nucleosidase (protein)
Unique Ligands	0O2

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6GW6	Download File View File

Structure of the Pseudomonas putida RES-Xre toxin-antitoxin complex

Senissar, M., Brodersen, D.E.

(2019) Mol Microbiol 111: 221-236

Released	2018-10-24
Method	X-RAY DIFFRACTION 2.205 Å
Organisms	Pseudomonas putida KT2440
Macromolecule	RES toxin (protein) Xre antitoxin (protein)
Unique Ligands	GOL, IMD

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6HPB	Download File View File

Crystal structure of the E.coli HicAB toxin-antitoxin complex

Manav, M.C., Brodersen, D.E.

(2019) Structure 27: 1675-1685.e3

Released	2019-09-18
Method	X-RAY DIFFRACTION 2.28 Å
Organisms	Escherichia coli 2-222-05_S4_C3 Escherichia coli str. K-12 substr. MG1655
Macromolecule	Antitoxin HicB (protein) mRNA interferase toxin HicA (protein)
Unique Ligands	SO4

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6HPC	Download File View File

Crystal structure of the HicB antitoxin from E. coli

Manav, M.C., Brodersen, D.E.

(2019) Structure 27: 1675-1685.e3

Released	2019-09-18
Method	X-RAY DIFFRACTION 2.26 Å
Organisms	Escherichia coli 2-210-07_S3_C3
Macromolecule	Antitoxin HicB (protein)

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7AB3	Download File View File

Crystal structure of the Escherichia coli toxin-antitoxin system HipBST (HipT S57A)

Baerentsen, R.L., Brodersen, D.E.

(2022) bioRxiv

Released	2022-01-12
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Escherichia coli O127:H6 str. E2348/69
Macromolecule	Couple_hipA domain-containing protein (protein) HipA_C domain-containing protein (protein) Predicted transcriptional regulator, XRE family (protein)

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7AB4	Download File View File

Crystal structure of the Escherichia coli toxin-antitoxin system HipBST (HipT S59A)

Baerentsen, R.L., Brodersen, D.E.

(2022) bioRxiv

Released	2022-01-12
Method	X-RAY DIFFRACTION 3.34 Å
Organisms	Escherichia coli O127:H6 str. E2348/69
Macromolecule	Couple_hipA domain-containing protein (protein) HipA_C domain-containing protein (protein) Predicted transcriptional regulator, XRE family (protein)

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7AB5	Download File View File

Crystal structure of the Escherichia coli toxin-antitoxin system HipBST (HipT D233Q)

Baerentsen, R.L., Brodersen, D.E.

(2022) bioRxiv

Released	2022-01-12
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Escherichia coli O127:H6 str. E2348/69
Macromolecule	Couple_hipA domain-containing protein (protein) HipA_C domain-containing protein (protein) Predicted transcriptional regulator, XRE family (protein)

1 to 22 of 22 Structures

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