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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Donini, S."

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Search Summary

This query matches 18 Structures.

Refinements

Structure Determination Methodology

experimental (18)

Scientific Name of Source Organism

	Homo sapiens (9)
	Mycobacterium tuberculosis H37Rv (3)
	Aspergillus fumigatus (2)
	Bos taurus (1)
	Escherichia coli (1)
	Mycolicibacterium smegmatis MC2 155 (1)
	Thermoplasma acidophilum DSM 1728 (1)

Taxonomy

	Eukaryota (12)
	Bacteria (5)
	Archaea (1)

Experimental Method

X-RAY DIFFRACTION (18)

Polymer Entity Type

Protein (18)

Refinement Resolution (Å)

	1.0 - 1.5 (2)
	1.5 - 2.0 (7)
	2.0 - 2.5 (7)
	2.5 - 3.0 (2)

Release Date

	2015 - 2019 (16)
	2020 - 2024 (2)

Enzyme Classification Name

	Hydrolases (8)
	Transferases (5)
	Lyases (1)

Symmetry Type

	Cyclic (15)
	Asymmetric (3)

SCOP Classification

	All alpha proteins (10)
	Artifacts (8)
	Alpha and beta proteins (a/b) (2)

AllSelected

1 to 18 of 18 Structures

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4YBO \| pdb_00004ybo	Download File View File

Structure of Citrate Synthase from the Thermoacidophilic Euryarchaeon Thermolasma acidophilum

Murphy, J.R., Donini, S., Kappock, T.J.

(2015) Acta Crystallogr F Struct Biol Commun 71: 1292-1299

Released	2015-09-02
Method	X-RAY DIFFRACTION 2.179 Å
Organisms	Thermoplasma acidophilum DSM 1728
Macromolecule	Citrate synthase (protein)
Unique Ligands	BCT

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5HKF \| pdb_00005hkf	Download File View File

Crystal structure of Mycobacterium tuberculosis H37Rv orotate phosphoribosyltransferase in complex with 5-phospho-alpha-D-ribosyl 1-diphosphate (PRPP)

Donini, S., Ferraris, D.M., Bolognesi, G., Rizzi, M.

(2017) Sci Rep 7: 1180-1180

Released	2017-01-25
Method	X-RAY DIFFRACTION 2.25 Å
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	Orotate phosphoribosyltransferase (protein)
Unique Ligands	PRP

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5HKI \| pdb_00005hki	Download File View File

Crystal structure of Mycobacterium tuberculosis H37Rv orotate phosphoribosyltransferase in complex with Fe(III) dicitrate

Donini, S., Ferraris, D.M., Bolognesi, G., Rizzi, M.

(2017) Sci Rep 7: 1180-1180

Released	2017-01-25
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	Orotate phosphoribosyltransferase (protein)
Unique Ligands	6ZJ

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5HKL \| pdb_00005hkl	Download File View File

Crystal structure of Mycobacterium tuberculosis H37Rv orotate phosphoribosyltransferase in complex with inorganic phosphate

Donini, S., Bolognesi, G., Rizzi, M.

(2017) Sci Rep 7: 1180-1180

Released	2017-01-25
Method	X-RAY DIFFRACTION 1.899 Å
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	Orotate phosphoribosyltransferase (protein)
Unique Ligands	PO4

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5MP7 \| pdb_00005mp7	Download File View File

Crystal structure of phosphoribosylpyrophosphate synthetase from Mycobacterium smegmatis

Donini, S., Garavaglia, S., Ferraris, D.M., Miggiano, R., Mori, S., Shibayama, K., Rizzi, M.

(2017) PLoS One 12: e0175815-e0175815

Released	2017-04-26
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Mycolicibacterium smegmatis MC2 155
Macromolecule	Ribose-phosphate pyrophosphokinase (protein)
Unique Ligands	ACT

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5OC2 \| pdb_00005oc2	Download File View File

Crystal structure of Asp295Cys/Lys303Cys Amadoriase I mutant from Aspergillus Fumigatus

Rigoldi, F., Donini, S., Gautieri, A., Parisini, E.

(2018) Sci Rep 8: 3042-3042

Released	2018-02-28
Method	X-RAY DIFFRACTION 2.85 Å
Organisms	Aspergillus fumigatus
Macromolecule	Fructosyl amine:oxygen oxidoreductase (protein)
Unique Ligands	FAD

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5OC3 \| pdb_00005oc3	Download File View File

Crystal structure of Ser67Cys/Pro121Cys Amadoriase I mutant from Aspergillus Fumigatus

Rigoldi, F., Donini, S., Gautieri, A., Parisini, E.

(2018) Sci Rep 8: 3042-3042

Released	2018-02-28
Method	X-RAY DIFFRACTION 2.153 Å
Organisms	Aspergillus fumigatus
Macromolecule	Fructosyl amine:oxygen oxidoreductase (protein)
Unique Ligands	FAD, GOL

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6F6U \| pdb_00006f6u	Download File View File

Crystal structure of the PDE4D catalytic domain in complex with GEBR-7b

Prosdocimi, T., Donini, S., Parisini, E.

(2018) Biochemistry 57: 2876-2888

Released	2018-05-16
Method	X-RAY DIFFRACTION 1.828 Å
Organisms	Homo sapiens
Macromolecule	cAMP-specific 3',5'-cyclic phosphodiesterase 4D (protein)
Unique Ligands	CV8, GOL, MG, ZN

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6F8R \| pdb_00006f8r	Download File View File

Crystal structure of the PDE4D catalytic domain in complex with GEBR-54

Prosdocimi, T., Donini, S., Parisini, E.

(2018) Biochemistry 57: 2876-2888

Released	2018-05-16
Method	X-RAY DIFFRACTION 1.826 Å
Organisms	Homo sapiens
Macromolecule	cAMP-specific 3',5'-cyclic phosphodiesterase 4D (protein)
Unique Ligands	CZK, EDO, MG, ZN

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6F8T \| pdb_00006f8t	Download File View File

Crystal structure of the PDE4D catalytic domain in complex with GEBR-4a

Prosdocimi, T., Donini, S., Parisini, E.

(2018) Biochemistry 57: 2876-2888

Released	2018-05-16
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Homo sapiens
Macromolecule	cAMP-specific 3',5'-cyclic phosphodiesterase 4D (protein)
Unique Ligands	CZT, MG, ZN

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6F8U \| pdb_00006f8u	Download File View File

Crystal structure of the PDE4D catalytic domain in complex with GEBR-20b

Prosdocimi, T., Donini, S., Parisini, E.

(2018) Biochemistry 57: 2876-2888

Released	2018-05-16
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	cAMP-specific 3',5'-cyclic phosphodiesterase 4D (protein)
Unique Ligands	CZQ, MG, ZN

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6F8V \| pdb_00006f8v	Download File View File

Crystal structure of the PDE4D catalytic domain in complex with GEBR-18b

Prosdocimi, T., Donini, S., Parisini, E.

(2018) Biochemistry 57: 2876-2888

Released	2018-05-16
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Homo sapiens
Macromolecule	cAMP-specific 3',5'-cyclic phosphodiesterase 4D (protein)
Unique Ligands	D0B, MG, ZN

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6F8W \| pdb_00006f8w	Download File View File

Crystal structure of the PDE4D catalytic domain in complex with GEBR-18a

Prosdocimi, T., Donini, S., Parisini, E.

(2018) Biochemistry 57: 2876-2888

Released	2018-05-16
Method	X-RAY DIFFRACTION 1.601 Å
Organisms	Homo sapiens
Macromolecule	cAMP-specific 3',5'-cyclic phosphodiesterase 4D (protein)
Unique Ligands	D0E, MG, ZN

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6F8X \| pdb_00006f8x	Download File View File

Crystal structure of the PDE4D catalytic domain in complex with GEBR-26g

Prosdocimi, T., Donini, S., Parisini, E.

(2018) Biochemistry 57: 2876-2888

Released	2018-05-16
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Homo sapiens
Macromolecule	cAMP-specific 3',5'-cyclic phosphodiesterase 4D (protein)
Unique Ligands	D08, DMS, EDO, MG, ZN

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6FDC \| pdb_00006fdc	Download File View File

Crystal structure of the PDE4D catalytic domain in complex with GEBR-32a

Prosdocimi, T., Donini, S., Parisini, E.

(2018) Biochemistry 57: 2876-2888

Released	2018-05-16
Method	X-RAY DIFFRACTION 1.45 Å
Organisms	Homo sapiens
Macromolecule	cAMP-specific 3',5'-cyclic phosphodiesterase 4D (protein)
Unique Ligands	D5N, DD5, EDO, MG, ZN

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6QS9 \| pdb_00006qs9	Download File View File

Bovine Serum Albumin in complex with Ketoprofen

Donini, S., Parisini, E.

(2019) ACS Omega 4: 13270-13278

Released	2019-09-11
Method	X-RAY DIFFRACTION 2.802 Å
Organisms	Bos taurus
Macromolecule	Serum albumin (protein)
Unique Ligands	CA, JGE

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6TOR \| pdb_00006tor	Download File View File

human O-phosphoethanolamine phospho-lyase

Vettraino, C., Donini, S., Parisini, E.

(2020) Acta Crystallogr F Struct Biol Commun 76: 160-167

Released	2020-04-15
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Homo sapiens
Macromolecule	Ethanolamine-phosphate phospho-lyase (protein)
Unique Ligands	GOL, PMP

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6Y4J \| pdb_00006y4j	Download File View File

Engineered Fructosyl Peptide Oxidase

Donini, S., Rigoldi, F., Gautieri, A., Parisini, E.

(2020) Biotechnol Bioeng 117: 3688-3698

Released	2021-01-13
Method	X-RAY DIFFRACTION 1.38 Å
Organisms	Escherichia coli
Macromolecule	Fructosyl Peptide Oxidase (protein)
Unique Ligands	FAD, GOL, SO4

1 to 18 of 18 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.

4YBO | pdb_00004ybo

Structure of Citrate Synthase from the Thermoacidophilic Euryarchaeon Thermolasma acidophilum

5HKF | pdb_00005hkf

Crystal structure of Mycobacterium tuberculosis H37Rv orotate phosphoribosyltransferase in complex with 5-phospho-alpha-D-ribosyl 1-diphosphate (PRPP)

5HKI | pdb_00005hki

Crystal structure of Mycobacterium tuberculosis H37Rv orotate phosphoribosyltransferase in complex with Fe(III) dicitrate

5HKL | pdb_00005hkl

Crystal structure of Mycobacterium tuberculosis H37Rv orotate phosphoribosyltransferase in complex with inorganic phosphate

5MP7 | pdb_00005mp7

Crystal structure of phosphoribosylpyrophosphate synthetase from Mycobacterium smegmatis

5OC2 | pdb_00005oc2

Crystal structure of Asp295Cys/Lys303Cys Amadoriase I mutant from Aspergillus Fumigatus

5OC3 | pdb_00005oc3

Crystal structure of Ser67Cys/Pro121Cys Amadoriase I mutant from Aspergillus Fumigatus

6F6U | pdb_00006f6u

Crystal structure of the PDE4D catalytic domain in complex with GEBR-7b

6F8R | pdb_00006f8r

Crystal structure of the PDE4D catalytic domain in complex with GEBR-54

6F8T | pdb_00006f8t

Crystal structure of the PDE4D catalytic domain in complex with GEBR-4a

6F8U | pdb_00006f8u

Crystal structure of the PDE4D catalytic domain in complex with GEBR-20b

6F8V | pdb_00006f8v

Crystal structure of the PDE4D catalytic domain in complex with GEBR-18b

6F8W | pdb_00006f8w

Crystal structure of the PDE4D catalytic domain in complex with GEBR-18a

6F8X | pdb_00006f8x

Crystal structure of the PDE4D catalytic domain in complex with GEBR-26g

6FDC | pdb_00006fdc

Crystal structure of the PDE4D catalytic domain in complex with GEBR-32a

6QS9 | pdb_00006qs9

Bovine Serum Albumin in complex with Ketoprofen

6TOR | pdb_00006tor

human O-phosphoethanolamine phospho-lyase

6Y4J | pdb_00006y4j

Engineered Fructosyl Peptide Oxidase

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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

4YBO | pdb_00004ybo

5HKF | pdb_00005hkf

5HKI | pdb_00005hki

5HKL | pdb_00005hkl

5MP7 | pdb_00005mp7

5OC2 | pdb_00005oc2

5OC3 | pdb_00005oc3

6F6U | pdb_00006f6u

6F8R | pdb_00006f8r

6F8T | pdb_00006f8t

6F8U | pdb_00006f8u

6F8V | pdb_00006f8v

6F8W | pdb_00006f8w

6F8X | pdb_00006f8x

6FDC | pdb_00006fdc

6QS9 | pdb_00006qs9

6TOR | pdb_00006tor

6Y4J | pdb_00006y4j