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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Imberty, A."

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Search Summary

This query matches 17 Structures.

Refinements

Structure Determination Methodology

experimental (17)

Scientific Name of Source Organism

	Severe acute respiratory syndrome coronavirus 2 (6)
	synthetic construct (5)
	Aeromonas jandaei (2)
	Candida parapsilosis (2)
	Kluyveromyces marxianus (2)
	Lactiplantibacillus plantarum (2)
	Human poliovirus 1 Mahoney (1)
	Mus musculus (1)
	Pichia (1)

Taxonomy

	Riboviria (7)
	Eukaryota (6)
	other sequences (5)
	Bacteria (4)
	Eukaryota (eukaryotes) (1)

Experimental Method

X-RAY DIFFRACTION (17)

Polymer Entity Type

Protein (17)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (10)
	2.0 - 2.5 (3)
	2.5 - 3.0 (3)

Release Date

	1995 - 1999 (1)
	2000 - 2004 (1)
	2010 - 2014 (4)
	2015 - 2019 (5)
	2020 - 2024 (6)

Enzyme Classification Name

	Oxidoreductases (4)
	Hydrolases (7)
	Lyases (2)
	Transferases (1)

Symmetry Type

	Cyclic (12)
	Asymmetric (5)
	Dihedral (2)

SCOP Classification

	Alpha and beta proteins (a/b) (6)
	Alpha and beta proteins (a+b) (2)
	All beta proteins (2)
	Artifacts (1)
	Multi-domain proteins (alpha and beta) (1)

AllSelected

1 to 17 of 17 Structures

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1RDR \| pdb_00001rdr	Download File View File

POLIOVIRUS 3D POLYMERASE

Hansen, J., Long, A., Schultz, S.

(1997) Structure 5: 1109-1122

Released	1998-09-16
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Human poliovirus 1 Mahoney
Macromolecule	POLIOVIRUS 3D POLYMERASE (protein)
Unique Ligands	CA

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1UJ0 \| pdb_00001uj0	Download File View File

Crystal Structure of STAM2 SH3 domain in complex with a UBPY-derived peptide

Kaneko, T., Kumasaka, T., Ganbe, T., Sato, T., Miyazawa, K., Kitamura, N., Tanaka, N.

(2003) J Biological Chem 278: 48162-48168

Released	2003-12-23
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Mus musculus
Macromolecule	deubiquitinating enzyme UBPY (protein) signal transducing adaptor molecule (SH3 domain and ITAM motif) 2 (protein)
Unique Ligands	PO4

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3VXG \| pdb_00003vxg	Download File View File

Crystal structure of conjugated polyketone reductase C2 from Candida Parapsilosis

Qin, H.-M., Yamamura, A., Miyakawa, T., Maruoka, S., Ohtsuka, J., Nagata, K., Kataoka, M., Shimizu, S., Tanokura, M.

(2014) Appl Microbiol Biotechnol 98: 243-249

Released	2013-08-07
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Candida parapsilosis
Macromolecule	Conjugated polyketone reductase C2 (protein)

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3WGB \| pdb_00003wgb	Download File View File

Crystal structure of aeromonas jandaei L-allo-threonine aldolase

Qin, H.M., Imai, F.L., Miyakawa, T., Kataoka, M., Okai, M., Ohtsuka, J., Hou, F., Nagata, K., Shimizu, S., Tanokura, M.

(2014) Acta Crystallogr D Biol Crystallogr 70: 1695-1703

Released	2014-07-09
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Aeromonas jandaei
Macromolecule	L-allo-threonine aldolase (protein)
Unique Ligands	GLY, PLG

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3WGC \| pdb_00003wgc	Download File View File

Aeromonas jandaei L-allo-threonine aldolase H128Y/S292R double mutant

Qin, H.M., Imai, F.L., Miyakawa, T., Kataoka, M., Okai, M., Ohtsuka, J., Hou, F., Nagata, K., Shimizu, S., Tanokura, M.

(2014) Acta Crystallogr D Biol Crystallogr 70: 1695-1703

Released	2014-07-09
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Aeromonas jandaei
Macromolecule	L-allo-threonine aldolase (protein)
Unique Ligands	PLG

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4H8N \| pdb_00004h8n	Download File View File

Crystal structure of conjugated polyketone reductase C2 from candida parapsilosis complexed with NADPH

Qin, H.-M., Yamamura, A., Miyakawa, T., Maruoka, S., Ohtsuka, J., Nagata, K., Kataoka, M., Shimizu, S., Tanokura, M.

(2014) Appl Microbiol Biotechnol 98: 243-249

Released	2013-08-07
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Candida parapsilosis
Macromolecule	Conjugated polyketone reductase C2 (protein)
Unique Ligands	NDP

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4QLX \| pdb_00004qlx	Download File View File

Crystal structure of CLA-ER with product binding

Hou, F., Miyakawa, T., Tanokura, M.

(2015) FEBS J 282: 1526-1537

Released	2015-02-25
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Lactiplantibacillus plantarum
Macromolecule	Nitroreductase family protein (protein)
Unique Ligands	CL, FMN, KTC

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4QLY \| pdb_00004qly	Download File View File

Crystal structure of CLA-ER, a novel enone reductase catalyzing a key step of a gut-bacterial fatty acid saturation metabolism, biohydrogenation

Hou, F., Miyakawa, T., Tanokura, M.

(2015) FEBS J 282: 1526-1537

Released	2015-02-25
Method	X-RAY DIFFRACTION 2.005 Å
Organisms	Lactiplantibacillus plantarum
Macromolecule	Enone reductase CLA-ER (protein)
Unique Ligands	FMN

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4TMB \| pdb_00004tmb	Download File View File

CRYSTAL STRUCTURE of OLD YELLOW ENZYME from CANDIDA MACEDONIENSIS AKU4588

Horita, S., Kataoka, M., Kitamura, N., Nakagawa, T., Miyakawa, T., Ohtsuka, J., Nagata, K., Shimizu, S., Tanokura, M.

(2015) Chembiochem 16: 440-445

Released	2015-02-11
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Kluyveromyces marxianus
Macromolecule	Old yellow enzyme (protein)
Unique Ligands	FMN

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4TMC \| pdb_00004tmc	Download File View File

CRYSTAL STRUCTURE of OLD YELLOW ENZYME from CANDIDA MACEDONIENSIS AKU4588 COMPLEXED with P-HYDROXYBENZALDEHYDE

Horita, S., Kataoka, M., Kitamura, N., Nakagawa, T., Miyakawa, T., Ohtsuka, J., Nagata, K., Shimizu, S., Tanokura, M.

(2015) Chembiochem 16: 440-445

Released	2015-02-11
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Kluyveromyces marxianus
Macromolecule	Old yellow enzyme (protein)
Unique Ligands	FMN, HBA

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6AGZ \| pdb_00006agz	Download File View File

Crystal structure of Old Yellow Enzyme from Pichia sp. AKU4542

Horita, S., Kataoka, M., Kitamura, N., Nakagawa, T., Miyakawa, T., Ohtsuka, J., Nagata, K., Shimizu, S., Tanokura, M.

(2019) Biosci Biotechnol Biochem 83: 456-462

Released	2019-06-26
Method	X-RAY DIFFRACTION 2 Å
Organisms	Pichia
Macromolecule	Old Yellow Enzyme (protein)
Unique Ligands	FMN

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6XA4 \| pdb_00006xa4	Download File View File

Crystal structure of the SARS-CoV-2 (COVID-19) main protease in complex with UAW241

Sacco, M., Ma, C., Wang, J., Chen, Y.

(2020) Sci Adv 6:

Released	2020-06-17
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Severe acute respiratory syndrome coronavirus 2 synthetic construct
Macromolecule	3C-like proteinase (protein) inhibitor UAW241 (protein)
Unique Ligands	GOL

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6XBG \| pdb_00006xbg	Download File View File

Crystal structure of the SARS-CoV-2 (COVID-19) main protease in complex with inhibitor UAW246

Sacco, M., Ma, C., Wang, J., Chen, Y.

(2020) Sci Adv 6:

Released	2020-06-17
Method	X-RAY DIFFRACTION 1.45 Å
Organisms	Severe acute respiratory syndrome coronavirus 2 synthetic construct
Macromolecule	3C-like proteinase (protein) inhibitor UAW246 (protein)
Unique Ligands	GOL, NA

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6XBH \| pdb_00006xbh	Download File View File

Crystal structure of the SARS-CoV-2 (COVID-19) main protease in complex with inhibitor UAW247

Sacco, M., Ma, C., Wang, J., Chen, Y.

(2020) Sci Adv 6:

Released	2020-06-17
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Severe acute respiratory syndrome coronavirus 2 synthetic construct
Macromolecule	3C-like proteinase (protein) inhibitor UAW247 (protein)
Unique Ligands	GOL, NA

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6XBI \| pdb_00006xbi	Download File View File

Crystal structure of the SARS-CoV-2 (COVID-19) main protease in complex with inhibitor UAW248

Sacco, M., Ma, C., Wang, J., Chen, Y.

(2020) Sci Adv 6:

Released	2020-06-17
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Severe acute respiratory syndrome coronavirus 2 synthetic construct
Macromolecule	3C-like proteinase (protein) inhibitor UAW248 (protein)
Unique Ligands	DMS, GOL, NA

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6XFN \| pdb_00006xfn	Download File View File

Crystal structure of the SARS-CoV-2 (COVID-19) main protease in complex with UAW243

Sacco, M., Ma, C., Wang, J., Chen, Y.

(2020) Sci Adv 6:

Released	2020-06-24
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Severe acute respiratory syndrome coronavirus 2 synthetic construct
Macromolecule	3C-like proteinase (protein) UAW243 (protein)
Unique Ligands	GOL

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7KX5 \| pdb_00007kx5	Download File View File

Crystal structure of the SARS-CoV-2 (COVID-19) main protease in complex with noncovalent inhibitor Jun8-76-3A

Sacco, M., Wang, J., Chen, Y.

(2021) J Am Chem Soc 143: 20697-20709

Released	2020-12-16
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Severe acute respiratory syndrome coronavirus 2
Macromolecule	3C-like proteinase (protein)
Unique Ligands	GOL, X7V

1 to 17 of 17 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.

1RDR | pdb_00001rdr

POLIOVIRUS 3D POLYMERASE

1UJ0 | pdb_00001uj0

Crystal Structure of STAM2 SH3 domain in complex with a UBPY-derived peptide

3VXG | pdb_00003vxg

Crystal structure of conjugated polyketone reductase C2 from Candida Parapsilosis

3WGB | pdb_00003wgb

Crystal structure of aeromonas jandaei L-allo-threonine aldolase

3WGC | pdb_00003wgc

Aeromonas jandaei L-allo-threonine aldolase H128Y/S292R double mutant

4H8N | pdb_00004h8n

Crystal structure of conjugated polyketone reductase C2 from candida parapsilosis complexed with NADPH

4QLX | pdb_00004qlx

Crystal structure of CLA-ER with product binding

4QLY | pdb_00004qly

Crystal structure of CLA-ER, a novel enone reductase catalyzing a key step of a gut-bacterial fatty acid saturation metabolism, biohydrogenation

4TMB | pdb_00004tmb

CRYSTAL STRUCTURE of OLD YELLOW ENZYME from CANDIDA MACEDONIENSIS AKU4588

4TMC | pdb_00004tmc

CRYSTAL STRUCTURE of OLD YELLOW ENZYME from CANDIDA MACEDONIENSIS AKU4588 COMPLEXED with P-HYDROXYBENZALDEHYDE

6AGZ | pdb_00006agz

Crystal structure of Old Yellow Enzyme from Pichia sp. AKU4542

6XA4 | pdb_00006xa4

Crystal structure of the SARS-CoV-2 (COVID-19) main protease in complex with UAW241

6XBG | pdb_00006xbg

Crystal structure of the SARS-CoV-2 (COVID-19) main protease in complex with inhibitor UAW246

6XBH | pdb_00006xbh

Crystal structure of the SARS-CoV-2 (COVID-19) main protease in complex with inhibitor UAW247

6XBI | pdb_00006xbi

Crystal structure of the SARS-CoV-2 (COVID-19) main protease in complex with inhibitor UAW248

6XFN | pdb_00006xfn

Crystal structure of the SARS-CoV-2 (COVID-19) main protease in complex with UAW243

7KX5 | pdb_00007kx5

Crystal structure of the SARS-CoV-2 (COVID-19) main protease in complex with noncovalent inhibitor Jun8-76-3A

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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

1RDR | pdb_00001rdr

1UJ0 | pdb_00001uj0

3VXG | pdb_00003vxg

3WGB | pdb_00003wgb

3WGC | pdb_00003wgc

4H8N | pdb_00004h8n

4QLX | pdb_00004qlx

4QLY | pdb_00004qly

4TMB | pdb_00004tmb

4TMC | pdb_00004tmc

6AGZ | pdb_00006agz

6XA4 | pdb_00006xa4

6XBG | pdb_00006xbg

6XBH | pdb_00006xbh

6XBI | pdb_00006xbi

6XFN | pdb_00006xfn

7KX5 | pdb_00007kx5