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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 "HYDROLASE/GENE REGULATION"

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This query matches 8 Structures.

Refinements

Structure Determination Methodology

experimental (8)

Scientific Name of Source Organism

	Saccharomyces cerevisiae (4)
	Schizosaccharomyces pombe (3)
	Pyrococcus furiosus DSM 3638 (1)

Taxonomy

	Eukaryota (7)
	Archaea (1)

Experimental Method

X-RAY DIFFRACTION (8)

Polymer Entity Type

Protein (8)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	2.0 - 2.5 (5)
	2.5 - 3.0 (2)

Release Date

	2000 - 2004 (1)
	2005 - 2009 (7)

Enzyme Classification Name

Hydrolases (8)

Symmetry Type

Asymmetric (8)

SCOP Classification

	Alpha and beta proteins (a/b) (8)
	Artifacts (5)
	All alpha proteins (4)
	All beta proteins (1)

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1 to 8 of 8 Structures

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1U04 \| pdb_00001u04	Download File View File

Crystal structure of full length Argonaute from Pyrococcus furiosus

Song, J.J., Smith, S.K., Hannon, G.J., Joshua-Tor, L.

(2004) Science 305: 1434-1437

Released	2004-08-17
Method	X-RAY DIFFRACTION 2.25 Å
Organisms	Pyrococcus furiosus DSM 3638
Macromolecule	hypothetical protein PF0537 (protein)

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2HBJ \| pdb_00002hbj	Download File View File

Structure of the yeast nuclear exosome component, Rrp6p, reveals an interplay between the active site and the HRDC domain

Midtgaard, S.F., Assenholt, J., Jonstrup, A.T., Van, L.B., Jensen, T.H., Brodersen, D.E.

(2006) Proc Natl Acad Sci U S A 103: 11898-11903

Released	2006-07-25
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Exosome complex exonuclease RRP6 (protein)

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2HBK \| pdb_00002hbk	Download File View File

Structure of the yeast nuclear exosome component, Rrp6p, reveals an interplay between the active site and the HRDC domain; Protein in complex with Mn

Midtgaard, S.F., Assenholt, J., Jonstrup, A.T., Van, L.B., Jensen, T.H., Brodersen, D.E.

(2006) Proc Natl Acad Sci U S A 103: 11898-11903

Released	2006-07-25
Method	X-RAY DIFFRACTION 2.25 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Exosome complex exonuclease RRP6 (protein)
Unique Ligands	MN

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2HBL \| pdb_00002hbl	Download File View File

Structure of the yeast nuclear exosome component, Rrp6p, reveals an interplay between the active site and the HRDC domain; Protein in complex with Mn, Zn, and AMP

Midtgaard, S.F., Assenholt, J., Jonstrup, A.T., Van, L.B., Jensen, T.H., Brodersen, D.E.

(2006) Proc Natl Acad Sci U S A 103: 11898-11903

Released	2006-07-25
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Exosome complex exonuclease RRP6 (protein)
Unique Ligands	AMP, MN, ZN

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2HBM \| pdb_00002hbm	Download File View File

Structure of the yeast nuclear exosome component, Rrp6p, reveals an interplay between the active site and the HRDC domain; Protein in complex with Mn, Zn, and UMP

Midtgaard, S.F., Assenholt, J., Jonstrup, A.T., Van, L.B., Jensen, T.H., Brodersen, D.E.

(2006) Proc Natl Acad Sci U S A 103: 11898-11903

Released	2006-07-25
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Exosome complex exonuclease RRP6 (protein)
Unique Ligands	MN, U5P, ZN

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2P51 \| pdb_00002p51	Download File View File

Crystal structure of the S. pombe Pop2p deadenylation subunit

Thyssen Jonstrup, A., Andersen, K.R., Van, L.B., Brodersen, D.E.

(2007) Nucleic Acids Res 35: 3153-3164

Released	2007-05-15
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Schizosaccharomyces pombe
Macromolecule	SPCC18.06c protein (protein)
Unique Ligands	MG

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3G0Z \| pdb_00003g0z	Download File View File

Structure of S. pombe Pop2p - Zn2+ and Mn2+ bound form

Andersen, K.R., Jonstrup, A.T., Van, L.B., Brodersen, D.E.

(2009) RNA 15: 850-861

Released	2009-03-31
Method	X-RAY DIFFRACTION 2.004 Å
Organisms	Schizosaccharomyces pombe
Macromolecule	CCR4-Not complex subunit Caf1 (protein)
Unique Ligands	MN, ZN

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3G10 \| pdb_00003g10	Download File View File

Structure of S. pombe Pop2p - Mg2+ and Mn2+ bound form

Andersen, K.R., Jonstrup, A.T., Van, L.B., Brodersen, D.E.

(2009) RNA 15: 850-861

Released	2009-03-31
Method	X-RAY DIFFRACTION 2.597 Å
Organisms	Schizosaccharomyces pombe
Macromolecule	CCR4-Not complex subunit Caf1 (protein)
Unique Ligands	MG, MN

1 to 8 of 8 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.

1U04 | pdb_00001u04

Crystal structure of full length Argonaute from Pyrococcus furiosus

2HBJ | pdb_00002hbj

Structure of the yeast nuclear exosome component, Rrp6p, reveals an interplay between the active site and the HRDC domain

2HBK | pdb_00002hbk

Structure of the yeast nuclear exosome component, Rrp6p, reveals an interplay between the active site and the HRDC domain; Protein in complex with Mn

2HBL | pdb_00002hbl

Structure of the yeast nuclear exosome component, Rrp6p, reveals an interplay between the active site and the HRDC domain; Protein in complex with Mn, Zn, and AMP

2HBM | pdb_00002hbm

Structure of the yeast nuclear exosome component, Rrp6p, reveals an interplay between the active site and the HRDC domain; Protein in complex with Mn, Zn, and UMP

2P51 | pdb_00002p51

Crystal structure of the S. pombe Pop2p deadenylation subunit

3G0Z | pdb_00003g0z

Structure of S. pombe Pop2p - Zn2+ and Mn2+ bound form

3G10 | pdb_00003g10

Structure of S. pombe Pop2p - Mg2+ and Mn2+ bound form

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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

1U04 | pdb_00001u04

2HBJ | pdb_00002hbj

2HBK | pdb_00002hbk

2HBL | pdb_00002hbl

2HBM | pdb_00002hbm

2P51 | pdb_00002p51

3G0Z | pdb_00003g0z

3G10 | pdb_00003g10