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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Cuppari, A."

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Search Summary

This query matches 19 Structures.

Refinements

Structure Determination Methodology

experimental (19)

Scientific Name of Source Organism

	Tannerella forsythia (6)
	Homo sapiens (5)
	Mus musculus (3)
	Porphyromonas gingivalis W83 (3)
	Astacus astacus (2)
	Bacillus subtilis (2)
	Bacillus subtilis subsp. natto (1)
	Tannerella forsythia 92A2 (1)
	synthetic construct (1)

Taxonomy

	Bacteria (13)
	Eukaryota (7)
	other sequences (1)

Experimental Method

X-RAY DIFFRACTION (19)

Polymer Entity Type

	Protein (19)
	DNA (2)
	RNA (1)

Refinement Resolution (Å)

	1.0 - 1.5 (3)
	1.5 - 2.0 (6)
	2.0 - 2.5 (5)
	2.5 - 3.0 (1)
	3.0 - 3.5 (4)

Release Date

	2015 - 2019 (5)
	2020 - 2024 (14)

Enzyme Classification Name

Hydrolases (5)

Symmetry Type

	Asymmetric (12)
	Cyclic (6)
	Dihedral (1)

SCOP Classification

Alpha and beta proteins (a+b) (2)

AllSelected

1 to 19 of 19 Structures

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6HB4 \| pdb_00006hb4	Download File View File

TFAM in Complex with Site-Y

Cuppari, A., Fernandez-Millan, P., Rubio-Cosials, A., Tarres-Sole, A., Lyonnais, S., Sola, M.

(2019) Nucleic Acids Res 47: 6519-6537

Released	2019-06-05
Method	X-RAY DIFFRACTION 3.05 Å
Organisms	Homo sapiens
Macromolecule	Transcription factor A, mitochondrial (protein) DNA (5'CPTPGPTPGPCPAPGPAPCPAPTPTPCPAPAPTPTPGPTPTPA)-3') (nucleic acid) DNA (5'-D(TPAPAPCPAPAPTPTPGPAPAPTPGPTPCPTPGPCPAPCPAPG)-3') (nucleic acid)
Unique Ligands	1PE, GOL

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6HC3 \| pdb_00006hc3	Download File View File

TFAM bound to Site-X

Fernandez-Millan, P., Cuppari, A., Tarres-Sole, A., Rubio-Cosials, A., Lyonnais, S., Sola, M.

(2019) Nucleic Acids Res 47: 6519-6537

Released	2019-06-05
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Homo sapiens
Macromolecule	Transcription factor A, mitochondrial (protein) DNA (5'-D(TPTPTPGPGPTPGPGPAPAPAPTPTPTPTPTPTPGPTPTPAPG)-3') (nucleic acid) DNA/RNA (5'-D(TPAPAPCPAPAPAPAPAPAPTPTPTPCPCPAPCPCPAPAPAPC)-3') (nucleic acid)
Unique Ligands	1PE, TLA

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6HPV \| pdb_00006hpv	Download File View File

Crystal structure of mouse fetuin-B

Fahrenkamp, D., Dietzel, E., de Sanctis, D., Jovine, L.

(2019) IUCrJ 6: 317-330

Released	2019-02-20
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Mus musculus
Macromolecule	Fetuin-B (protein)
Unique Ligands	ACT, NAG

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6HT9 \| pdb_00006ht9	Download File View File

Mouse fetuin-B in complex with crayfish astacin

Gomis-Ruth, F.X., Goulas, T., Guevara, T., Cuppari, A.

(2019) IUCrJ 6: 317-330

Released	2019-03-13
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Astacus astacus Mus musculus
Macromolecule	Astacin (protein) Fetuin-B (protein)
Unique Ligands	GOL, NAG, ZN
Unique branched monosaccharides	NAG

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6SAZ \| pdb_00006saz	Download File View File

Cleaved human fetuin-b in complex with crayfish astacin

Gomis-Ruth, F.X., Guevara, T., Cuppari, A., Korschgen, H., Schmitz, C., Kuske, M., Yiallouros, I., Floehr, J., Jahnen-Dechent, W., Stocker, W.

(2019) Sci Rep 9: 14683-14683

Released	2019-10-23
Method	X-RAY DIFFRACTION 3 Å
Organisms	Astacus astacus Homo sapiens
Macromolecule	Astacin (protein) Fetuin-B (protein)
Unique Ligands	NAG, ZN
Unique branched monosaccharides	BMA, FUC, NAG

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7AUW \| pdb_00007auw	Download File View File

Inhibitory complex of human meprin beta with mouse fetuin-B.

Eckhard, U., Gomis-Ruth, F.X.

(2021) Proc Natl Acad Sci U S A 118:

Released	2021-04-14
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Fetuin-B (protein) Meprin A subunit beta (protein)
Unique Ligands	NA, NAG, SO4, ZN
Unique branched monosaccharides	BMA, FUC, GLC, MAN, NAG

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7NUV \| pdb_00007nuv	Download File View File

Crystal structure of the Aux2pLS20 tetramerization domain

Crespo, I., Boer, D.R.

(2022) Comput Struct Biotechnol J 20: 757-765

Released	2022-03-09
Method	X-RAY DIFFRACTION 1.76 Å
Organisms	Bacillus subtilis
Macromolecule	Aux2pLS20 (protein)

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7PV7 \| pdb_00007pv7	Download File View File

Crystal structure of dimeric Porphyromonas gingivalis PorX, a type 9 secretion system response regulator.

Schmitz, C.A., Madej, M., Potempa, J., Sola, M.

(2022) Nucleic Acids Res 50: 12558-12577

Released	2022-12-14
Method	X-RAY DIFFRACTION 2.41 Å
Organisms	Porphyromonas gingivalis W83
Macromolecule	Response regulator (protein)
Unique Ligands	BEF, FMT, GOL, MG, ZN

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7PVA \| pdb_00007pva	Download File View File

1.9 Angstrom crystal structure of dimeric PorX, co-crystallized in the presence of zinc

Schmitz, C.A., Madej, M., Potempa, J., Sola, M.

(2022) Nucleic Acids Res 50: 12558-12577

Released	2022-12-14
Method	X-RAY DIFFRACTION 1.91 Å
Organisms	Porphyromonas gingivalis W83
Macromolecule	Response regulator (protein)
Unique Ligands	BEF, CL, FMT, GOL, MG, ZN

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7PVK \| pdb_00007pvk	Download File View File

X-ray structure of dimeric PorX (T272A mutant), in complex with pGpG.

Schmitz, C.A., Madej, M., Potempa, J., Sola, M.

(2022) Nucleic Acids Res 50: 12558-12577

Released	2022-12-14
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Porphyromonas gingivalis W83 synthetic construct
Macromolecule	Response regulator (protein) pGpG (nucleic acid)
Unique Ligands	BEF, FMT, GOL, MG, ZN

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7QNQ \| pdb_00007qnq	Download File View File

Structure of the Aux2 relaxosome protein of plasmid pLS20

Boer, D.R., Crespo, I.

(2022) Comput Struct Biotechnol J 20: 757-765

Released	2022-03-09
Method	X-RAY DIFFRACTION 1.89 Å
Organisms	Bacillus subtilis subsp. natto
Macromolecule	Auxiliary relaxosome protein (protein)
Unique Ligands	CL, MG

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8B2M \| pdb_00008b2m	Download File View File

Matrix-metallopeptidase inhibitor Potempin A (PotA) from Tannerella forsythia

Potempa, J., Ksiazek, M., Goulas, T., Cuppari, A., Rodriguez-Banqueri, A., Arolas, J.L., Lopez-Pelegrin, M., Garcia-Ferrer, I., Guevara, T.

(2023) Chem Sci 14: 869-888

Released	2022-12-21
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Tannerella forsythia
Macromolecule	Tannerella forsythia Potempin A (PotA) (protein)
Unique Ligands	NI

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8B2N \| pdb_00008b2n	Download File View File

Potempin A (PotA) from Tannerella forsythia in complex with the catalytic domain of human MMP-12

Potempa, J., Ksiazek, M., Goulas, T., Cuppari, A., Rodriguez-Banqueri, A., Arolas, J.L., Lopez-Pelegrin, M., Garcia-Ferrer, I., Guevara, T.

(2023) Chem Sci 14: 869-888

Released	2022-12-21
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Homo sapiens Tannerella forsythia
Macromolecule	Macrophage metalloelastase (protein) Tannerella forsythia potempin A (PotA) (protein)
Unique Ligands	CA, ZN

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8B2Q \| pdb_00008b2q	Download File View File

Matrix-metallopeptidase inhibitor Potempin A (PotA) from Tannerella forsythia in complex with T. forsythia karilysin.

Potempa, J., Ksiazek, M., Goulas, T., Cuppari, A., Rodriguez-Banqueri, A., Arolas, J.L., Lopez-Pelegrin, M., Garcia-Ferrer, I., Guevara, T.

(2023) Chem Sci 14: 869-888

Released	2022-12-21
Method	X-RAY DIFFRACTION 1.35 Å
Organisms	Tannerella forsythia
Macromolecule	Karilysin long form Kly38 (protein) Tannerella forsythia potempin A (PotA) (protein)
Unique Ligands	CA, GOL, MES, ZN

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8BNY \| pdb_00008bny	Download File View File

Structure of the tetramerization domain of pLS20 conjugation repressor Rco

Bernardo, N., Crespo, I., Meijer, W.J.J., Boer, D.R.

(2023) Acta Crystallogr D Struct Biol 79: 259-267

Released	2023-04-19
Method	X-RAY DIFFRACTION 1.429 Å
Organisms	Bacillus subtilis
Macromolecule	Immunity repressor protein (protein)
Unique Ligands	CL

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8EHB \| pdb_00008ehb	Download File View File

Structure of Tannerella forsythia selenomethionine-derivatized potempin D mutant I53M

Gomis-Ruth, F.X.

(2023) Chem Sci 14: 869-888

Released	2022-12-21
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Tannerella forsythia 92A2
Macromolecule	Putative lipoprotein (protein)
Unique Ligands	EDO

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8EHC \| pdb_00008ehc	Download File View File

Structure of Tannerella forsythia selenomethionine-derivatized potempin E

Gomis-Ruth, F.X.

(2023) Chem Sci 14: 869-888

Released	2022-12-21
Method	X-RAY DIFFRACTION 2 Å
Organisms	Tannerella forsythia
Macromolecule	Potempin E (PotE) (protein)
Unique Ligands	GOL

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8EHD \| pdb_00008ehd	Download File View File

Structure of Tannerella forsythia potempin E

Gomis-Ruth, F.X.

(2023) Chem Sci 14: 869-888

Released	2022-12-21
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Tannerella forsythia
Macromolecule	Potempin E (PotE) (protein)
Unique Ligands	EPE

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8EHE \| pdb_00008ehe	Download File View File

Structure of Tannerella forsythia potempin C in complex with mirolase

Gomis-Ruth, F.X.

(2023) Chem Sci 14: 869-888

Released	2022-12-21
Method	X-RAY DIFFRACTION 1.1 Å
Organisms	Tannerella forsythia
Macromolecule	Mirolase (protein) Potempin C (PotC) (protein)
Unique Ligands	CA, EDO, GOL, NA

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.

6HB4 | pdb_00006hb4

TFAM in Complex with Site-Y

6HC3 | pdb_00006hc3

TFAM bound to Site-X

6HPV | pdb_00006hpv

Crystal structure of mouse fetuin-B

6HT9 | pdb_00006ht9

Mouse fetuin-B in complex with crayfish astacin

6SAZ | pdb_00006saz

Cleaved human fetuin-b in complex with crayfish astacin

7AUW | pdb_00007auw

Inhibitory complex of human meprin beta with mouse fetuin-B.

7NUV | pdb_00007nuv

Crystal structure of the Aux2pLS20 tetramerization domain

7PV7 | pdb_00007pv7

Crystal structure of dimeric Porphyromonas gingivalis PorX, a type 9 secretion system response regulator.

7PVA | pdb_00007pva

1.9 Angstrom crystal structure of dimeric PorX, co-crystallized in the presence of zinc

7PVK | pdb_00007pvk

X-ray structure of dimeric PorX (T272A mutant), in complex with pGpG.

7QNQ | pdb_00007qnq

Structure of the Aux2 relaxosome protein of plasmid pLS20

8B2M | pdb_00008b2m

Matrix-metallopeptidase inhibitor Potempin A (PotA) from Tannerella forsythia

8B2N | pdb_00008b2n

Potempin A (PotA) from Tannerella forsythia in complex with the catalytic domain of human MMP-12

8B2Q | pdb_00008b2q

Matrix-metallopeptidase inhibitor Potempin A (PotA) from Tannerella forsythia in complex with T. forsythia karilysin.

8BNY | pdb_00008bny

Structure of the tetramerization domain of pLS20 conjugation repressor Rco

8EHB | pdb_00008ehb

Structure of Tannerella forsythia selenomethionine-derivatized potempin D mutant I53M

8EHC | pdb_00008ehc

Structure of Tannerella forsythia selenomethionine-derivatized potempin E

8EHD | pdb_00008ehd

Structure of Tannerella forsythia potempin E

8EHE | pdb_00008ehe

Structure of Tannerella forsythia potempin C in complex with mirolase

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Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

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Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Symmetry Type

SCOP Classification

6HB4 | pdb_00006hb4

6HC3 | pdb_00006hc3

6HPV | pdb_00006hpv

6HT9 | pdb_00006ht9

6SAZ | pdb_00006saz

7AUW | pdb_00007auw

7NUV | pdb_00007nuv

7PV7 | pdb_00007pv7

7PVA | pdb_00007pva

7PVK | pdb_00007pvk

7QNQ | pdb_00007qnq

8B2M | pdb_00008b2m

8B2N | pdb_00008b2n

8B2Q | pdb_00008b2q

8BNY | pdb_00008bny

8EHB | pdb_00008ehb

8EHC | pdb_00008ehc

8EHD | pdb_00008ehd

8EHE | pdb_00008ehe