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235,183 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Dubin, G."

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Search Summary

This query matches 85 Structures.

Refinements

Structure Determination Methodology

experimental (85)

Scientific Name of Source Organism

	Homo sapiens (34)
	Trypanosoma cruzi strain CL Brener (8)
	Staphylococcus aureus (7)
	Staphylococcus aureus subsp. aureus NCTC 8325 (6)
	Trypanosoma cruzi (6)
	Mus musculus (5)
	Trypanosoma brucei brucei (4)
	Trypanosoma cruzi cruzi (4)
	synthetic construct (4)
	Arabidopsis thaliana (2)

More...

Taxonomy

	Eukaryota (61)
	Bacteria (18)
	Riboviria (4)
	other sequences (4)
	Archaea (2)
	unclassified bacterial viruses (2)

Experimental Method

	X-RAY DIFFRACTION (77)
	ELECTRON MICROSCOPY (7)
	SOLUTION NMR (1)

Polymer Entity Type

Protein (85)

Refinement Resolution (Å)

	0.5 - 1.0 (2)
	1.0 - 1.5 (8)
	1.5 - 2.0 (29)
	2.0 - 2.5 (32)
	2.5 - 3.0 (5)
	3.0 - 3.5 (5)
	3.5 - 4.0 (3)

Release Date

	2000 - 2004 (1)
	2005 - 2009 (2)
	2010 - 2014 (10)
	2015 - 2019 (39)
	2020 - 2024 (32)
	2025 - 2029 (1)

Enzyme Classification Name

	Hydrolases (21)
	Transferases (20)
	Oxidoreductases (11)
	Ligases (4)

Symmetry Type

	Asymmetric (60)
	Cyclic (20)
	Dihedral (5)

SCOP Classification

	All beta proteins (24)
	Artifacts (15)
	All alpha proteins (7)
	Alpha and beta proteins (a+b) (5)
	Alpha and beta proteins (a/b) (2)

AllSelected

1 to 25 of 85 Structures

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1OH1 \| pdb_00001oh1	Download File View File

Solution structure of staphostatin A form Staphylococcus aureus confirms the discovery of a novel class of cysteine proteinase inhibitors.

Dubin, G., Popowicz, G., Krajewski, M., Stec, J., Bochtler, M., Potempa, J., Dubin, A., Holak, T.A.

(2003) Biochemistry 42: 13449

Released	2003-11-20
Method	SOLUTION NMR
Organisms	Staphylococcus aureus
Macromolecule	STAPHOSTATIN A (protein)

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2AS9 \| pdb_00002as9	Download File View File

Functional and structural characterization of Spl proteases from staphylococcus aureus

Popowicz, G.M., Dubin, G., Stec-Niemczyk, J., Czarny, A., Dubin, A., Potempa, J., Holak, T.A.

(2006) J Mol Biology 358: 270-279

Released	2005-09-06
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Staphylococcus aureus
Macromolecule	serine protease (protein)
Unique Ligands	ZN

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2VID \| pdb_00002vid	Download File View File

Serine protease SplB from Staphylococcus aureus at 1.8A resolution

Dubin, G., Stec-Niemczyk, J., Kisielewska, M., Pustelny, K., Popowicz, G.M., Bista, M., Kantyka, T., Boulware, K.T., Stennicke, H.R., Czarna, A., Phopaisarn, M., Daugherty, P.S., Thogersen, I.B., Enghild, J.J., Thornberry, N., Dubin, A., Potempa, J.

(2008) J Mol Biology 379: 343

Released	2008-05-13
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Staphylococcus aureus
Macromolecule	SERINE PROTEASE SPLB (protein)

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2W7S \| pdb_00002w7s	Download File View File

SplA serine protease of Staphylococcus aureus (1.8A)

Stec-Niemczyka, J., Pustelny, K., Kisielewska, M., Bista, M., Boulware, K.T., Stennicke, H.R., Thogersen, I.B., Daugherty, P.S., Enghild, J.J., Popowicz, G.M., Dubin, A., Potempa, J., Dubin, G.

(2009) Biochem J 419: 555

Released	2010-03-31
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Staphylococcus aureus
Macromolecule	SERINE PROTEASE SPLA (protein)

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2W7U \| pdb_00002w7u	Download File View File

SplA serine protease of Staphylococcus aureus (2.4A)

Stec-Niemczyka, J., Pustelny, K., Kisielewska, M., Bista, M., Boulware, K.T., Stennicke, H.R., Thogersen, I.B., Daugherty, P.S., Enghild, J.J., Popowicz, G.M., Dubin, A., Potempa, J., Dubin, G.

(2009) Biochem J 419: 555

Released	2010-03-31
Method	X-RAY DIFFRACTION 2.43 Å
Organisms	Staphylococcus aureus
Macromolecule	SERINE PROTEASE SPLA (protein)

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3UFA \| pdb_00003ufa	Download File View File

Crystal structure of the staphylococcal serine protease SplA in complex with a specific phosphonate inhibitor

Zdzalik, M., Pietrusewicz, E., Pustelny, K., Stec-Niemczyk, J., Popowicz, G.M., Potempa, J., Oleksyszyn, J., Dubin, G.

(2014) Protein Sci 23: 179-189

Released	2013-01-23
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Staphylococcus aureus subsp. aureus NCTC 8325
Macromolecule	Serine protease splA (protein)
Unique Ligands	CL, VPF

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4GR2 \| pdb_00004gr2	Download File View File

Structure of AtRbcX1 from Arabidopsis thaliana.

Golik, P., Grudnik, P., Kolesinski, P., Dubin, G., Szczepaniak, A.

(2013) Biochim Biophys Acta 1830: 2899-2906

Released	2013-01-30
Method	X-RAY DIFFRACTION 2 Å
Organisms	Arabidopsis thaliana
Macromolecule	AtRbcX1 (protein)

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4GR6 \| pdb_00004gr6	Download File View File

Crystal structure of AtRbcX2 from Arabidopsis thaliana

Grudnik, P., Golik, P., Kolesinski, P., Dubin, G., Szczepaniak, A.

(2013) Biochim Biophys Acta 1830: 2899-2906

Released	2013-01-30
Method	X-RAY DIFFRACTION 2 Å
Organisms	Arabidopsis thaliana
Macromolecule	AtRbcX2 (protein)
Unique Ligands	EDO

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4INK \| pdb_00004ink	Download File View File

Crystal structure of SplD protease from Staphylococcus aureus at 1.56 A resolution

Zdzalik, M., Kalinska, M., Cichon, P., Wysocka, M., Stec-Niemczyk, J., Stennicke, H.R., Jabaiah, A., Markiewicz, M., Wladyka, B., Daugherty, P.S., Lesner, A., Rolka, K., Dubin, A., Potempa, J., Dubin, G.

(2013) PLoS One 8: e76812-e76812

Released	2013-10-30
Method	X-RAY DIFFRACTION 1.56 Å
Organisms	Staphylococcus aureus subsp. aureus NCTC 8325
Macromolecule	Serine protease SplD (protein)

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4INL \| pdb_00004inl	Download File View File

Crystal structure of SplD protease from Staphylococcus aureus at 2.1 A resolution

Cichon, P., Zdzalik, M., Kalinska, M., Wysocka, M., Stec-Niemczyk, J., Stennicke, H.R., Jabaiah, A., Markiewicz, M., Wladyka, B., Daugherty, P.S., Lesner, A., Rolka, K., Dubin, A., Potempa, J., Dubin, G.

(2013) PLoS One 8: e76812-e76812

Released	2013-10-30
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Staphylococcus aureus subsp. aureus NCTC 8325
Macromolecule	Serine protease SplD (protein)

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4K1S \| pdb_00004k1s	Download File View File

Gly-Ser-SplB protease from Staphylococcus aureus at 1.96 A resolution

Zdzalik, M., Pustelny, K., Stec-Niemczyk, J., Cichon, P., Czarna, A., Popowicz, G., Drag, M., Wladyka, B., Potempa, J., Dubin, A., Dubin, G.

(2014) J Biological Chem 289: 15544-15553

Released	2014-04-16
Method	X-RAY DIFFRACTION 1.96 Å
Organisms	Staphylococcus aureus subsp. aureus NCTC 8325
Macromolecule	Serine protease SplB (protein)

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4K1T \| pdb_00004k1t	Download File View File

Gly-Ser-SplB protease from Staphylococcus aureus at 1.60 A resolution

Zdzalik, M., Pustelny, K., Stec-Niemczyk, J., Cichon, P., Czarna, A., Popowicz, G., Drag, M., Wladyka, B., Potempa, J., Dubin, A., Dubin, G.

(2014) J Biological Chem 289: 15544-15553

Released	2014-04-16
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Staphylococcus aureus subsp. aureus NCTC 8325
Macromolecule	Serine protease SplB (protein)
Unique Ligands	CL, SO4, ZN

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4MVN \| pdb_00004mvn	Download File View File

Crystal structure of the staphylococcal serine protease SplA in complex with a specific phosphonate inhibitor

Zdzalik, M., Burchacka, E., Niemczyk, J.S., Pustelny, K., Popowicz, G.M., Wladyka, B., Dubin, A., Potempa, J., Sienczyk, M., Dubin, G., Oleksyszyn, J.

(2014) Protein Sci 23: 179-189

Released	2014-01-22
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Staphylococcus aureus subsp. aureus NCTC 8325
Macromolecule	Serine protease splA (protein)
Unique Ligands	I1S

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4TRP \| pdb_00004trp	Download File View File

Crystal structure of monoclonal antibody against neuroblastoma associated antigen.

Horwacik, I., Golik, P., Grudnik, P., Zdzalik, M., Rokita, H., Dubin, G.

(2015) Mol Cell Proteomics 14: 2577-2590

Released	2015-07-15
Method	X-RAY DIFFRACTION 1.25 Å
Organisms	Mus musculus
Macromolecule	Heavy chain of monoclonal antibody against neuroblastoma associated antigen (protein) Light chain of monoclonal antibody against neuroblastoma associated antigen (protein)

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4TUJ \| pdb_00004tuj	Download File View File

Crystal structure of monoclonal antibody against neuroblastoma associated antigen.

Grudnik, P., Golik, P., Horwacik, I., Zdzalik, M., Rokita, H., Dubin, G.

(2015) Mol Cell Proteomics 14: 2577-2590

Released	2015-07-15
Method	X-RAY DIFFRACTION 1.89 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Heavy chain of monoclonal antibody against neuroblastoma associated antigen (protein) Light chain of monoclonal antibody against neuroblastoma associated antigen (protein) peptide1 (protein)

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4TUK \| pdb_00004tuk	Download File View File

Crystal structure of monoclonal antibody against neuroblastoma associated antigen.

Golik, P., Grudnik, P., Dubin, G., Horwacik, I., Zdzalik, M., Rokita, H.

(2015) Mol Cell Proteomics 14: 2577-2590

Released	2015-07-15
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Mus musculus Phage #D
Macromolecule	Heavy chain of monoclonal antibody against neuroblastoma associated antigen (protein) Light chain of monoclonal antibody against neuroblastoma associated antigen (protein) peptide2 (protein)
Unique Ligands	CL

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4TUL \| pdb_00004tul	Download File View File

Crystal structure of monoclonal antibody against neuroblastoma associated antigen.

Golik, P., Grudnik, P., Dubin, G., Zdzalik, M., Rokita, H., Horwacik, I.

(2015) Mol Cell Proteomics 14: 2577-2590

Released	2015-07-15
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Mus musculus Phage #D
Macromolecule	Heavy chain of monoclonal antibody against neuroblastoma associated antigen (protein) Light chain of monoclonal antibody against neuroblastoma associated antigen (protein) peptide2 (protein)
Unique Ligands	ACT, SO4

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4TUO \| pdb_00004tuo	Download File View File

Crystal structure of monoclonal antibody against neuroblastoma associated antigen.

Golik, P., Grudnik, P., Horwacik, I., Zdzalik, M., Rokita, H., Dubin, G.

(2015) Mol Cell Proteomics 14: 2577-2590

Released	2015-07-15
Method	X-RAY DIFFRACTION 1.55 Å
Organisms	Mus musculus
Macromolecule	Heavy chain of monoclonal antibody against neuroblastoma associated antigen (protein) Light chain of monoclonal antibody against neuroblastoma associated antigen (protein)
Unique Ligands	NA
Unique branched monosaccharides	BGC, GAL, GLC, NGA, SIA

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4U2W \| pdb_00004u2w	Download File View File

Atomic resolution crystal structure of HV-BBI protease inhibitor from amphibian skin in complex with bovine trypsin

Grudnik, P., Golik, P., Malicki, S., Debowski, D., Legowska, A., Rolka, K., Dubin, G.

(2015) Proteins 83: 582-589

Released	2015-01-14
Method	X-RAY DIFFRACTION 1 Å
Organisms	Bos taurus Odorrana versabilis
Macromolecule	Bowman-Birk trypsin inhibitor (protein) Cationic trypsin (protein)
Unique Ligands	CA, EDO, SO4

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4XOJ \| pdb_00004xoj	Download File View File

Structure of bovine trypsin in complex with analogues of sunflower inhibitor 1 (SFTI-1)

Golik, P., Malicki, S., Grudnik, P., Karna, N., Debowski, D., Legowska, A., Wladyka, B., Gitlin, A., Brzozowski, K., Dubin, G., Rolka, K.

(2015) Chembiochem 16: 2036-2045

Released	2015-08-12
Method	X-RAY DIFFRACTION 0.91 Å
Organisms	Bos taurus Helianthus annuus
Macromolecule	Cationic trypsin (protein) Trypsin inhibitor 1 (protein)
Unique Ligands	CA, EDO, NA, NH4, SO4

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4ZFI \| pdb_00004zfi	Download File View File

Structure of Mdm2 with low molecular weight inhibitor

Zak, K.M., Twarda-Clapa, A., Wrona, E.M., Grudnik, P., Dubin, G., Holak, T.A.

(2016) ACS Chem Biol 11: 3310-3318

Released	2016-10-19
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase Mdm2 (protein)
Unique Ligands	4NJ

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4ZGK \| pdb_00004zgk	Download File View File

Structure of Mdm2 with low molecular weight inhibitor.

Twarda-Clapa, A., Zak, K.M., Wrona, E.M., Grudnik, P., Dubin, G., Holak, T.A.

(2016) ACS Chem Biol 11: 3310-3318

Released	2016-10-19
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens
Macromolecule	E3 ubiquitin-protein ligase Mdm2 (protein)
Unique Ligands	4NX

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4ZQK \| pdb_00004zqk	Download File View File

Structure of the complex of human programmed death-1 (PD-1) and its ligand PD-L1.

Zak, K.M., Dubin, G., Holak, T.A.

(2015) Structure 23: 2341-2348

Released	2015-11-04
Method	X-RAY DIFFRACTION 2.45 Å
Organisms	Homo sapiens
Macromolecule	Programmed cell death 1 ligand 1 (protein) Programmed cell death protein 1 (protein)
Unique Ligands	NA