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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Park, S.-Y."

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Search Summary

This query matches 148 Structures.

Refinements

Structure Determination Methodology

experimental (148)

Scientific Name of Source Organism

	Homo sapiens (28)
	Physeter macrocephalus (25)
	Escherichia coli (13)
	Thermus thermophilus (12)
	Fusarium oxysporum (11)
	Pseudomonas putida (6)
	Haemophilus influenzae (5)
	Equus caballus (4)
	Cyanobacteriota (3)
	Influenza A virus (A/Puerto Rico/8/1934(H1N1)) (3)

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Taxonomy

	Eukaryota (87)
	Bacteria (55)
	Archaea (3)
	Riboviria (3)
	Eukaryota (eukaryotes) (2)

Experimental Method

X-RAY DIFFRACTION (148)

Polymer Entity Type

	Protein (148)
	DNA (1)

Refinement Resolution (Å)

	1.0 - 1.5 (44)
	1.5 - 2.0 (54)
	2.0 - 2.5 (35)
	2.5 - 3.0 (11)
	3.0 - 3.5 (3)
	3.5 - 4.0 (1)

Release Date

	1995 - 1999 (4)
	2000 - 2004 (50)
	2005 - 2009 (57)
	2010 - 2014 (15)
	2015 - 2019 (17)
	2020 - 2024 (5)

Enzyme Classification Name

	Oxidoreductases (47)
	Hydrolases (23)
	Transferases (11)
	Lyases (8)
	Isomerases (4)

Membrane Protein Annotation

	MemProtMD (3)
	PDBTM (3)
	mpstruc (2)
	OPM (1)

Symmetry Type

	Asymmetric (91)
	Cyclic (61)
	Dihedral (5)
	Octahedral (3)

SCOP Classification

	All alpha proteins (77)
	Alpha and beta proteins (a+b) (17)
	Multi-domain proteins (alpha and beta) (12)
	Alpha and beta proteins (a/b) (7)
	Artifacts (5)
	All beta proteins (4)
	Peptides (3)
	Membrane and cell surface proteins and peptides (2)

AllSelected

1 to 25 of 148 Structures

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1CL6 \| pdb_00001cl6	Download File View File

CRYSTAL STRUCTURES OF FERRIC-NO COMPLEXES OF FUNGAL NITRIC OXIDE REDUCTASE AND ITS SER286 MUTANTS AT CRYOGENIC TEMPERATURE

Park, S.-Y., Shiro, Y.

(2000) J Biological Chem 275: 4816-4826

Released	2000-03-22
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Fusarium oxysporum
Macromolecule	CYTOCHROME P450 (protein)
Unique Ligands	HEM, NO

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1CMJ \| pdb_00001cmj	Download File View File

CRYSTAL STRUCTURES OF FERRIC-NO COMPLEXES OF FUNGAL NITRIC OXIDE REDUCTASE AND THEIR SER286 MUTANTS AT CRYOGENIC TEMPERATURE

Park, S.-Y., Shiro, Y.

(2000) J Biological Chem 275: 4816-4826

Released	2000-03-22
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Fusarium oxysporum
Macromolecule	CYTOCHROME P450 (protein)
Unique Ligands	HEM, NO

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1CMN \| pdb_00001cmn	Download File View File

CRYSTAL STRUCTURES OF FERRIC-NO COMPLEXES OF FUNGAL NITRIC OXIDE REDUCTASE AND THEIR SER286 MUTANTS AT CRYOGENIC TEMPERATURE

Park, S.-Y., Shiro, Y.

(2000) J Biological Chem 275: 4816-4826

Released	2000-03-22
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Fusarium oxysporum
Macromolecule	CYTOCHROME P450 (protein)
Unique Ligands	HEM, NO

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1D06 \| pdb_00001d06	Download File View File

STRUCTURAL BASIS OF DIMERIZATION AND SENSORY MECHANISMS OF OXYGEN-SENSING DOMAIN OF RHIZOBIUM MELILOTI FIXL DETERMINED AT 1.4A RESOLUTION

Miyatake, H., Mukai, M., Park, S.-Y., Adachi, S., Tamura, K., Nakamura, H., Nakamura, K., Tsuchiya, T., Iizuka, T., Shiro, Y.

(2000) J Mol Biology 301: 415-431

Released	2000-03-15
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Sinorhizobium meliloti
Macromolecule	nitrogen fixation regulatory protein fixL (protein)
Unique Ligands	HEM

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1EW0 \| pdb_00001ew0	Download File View File

CRYSTAL STRUCTURE ANALYSIS OF THE SENSOR DOMAIN OF RMFIXL(FERROUS FORM)

Miyatake, H., Mukai, M., Park, S.-Y., Adachi, S., Tamura, K., Nakamura, H., Nakamura, K., Tsuchiya, T., Iizuka, T., Shiro, Y.

(2000) J Mol Biology 301: 415-431

Released	2000-05-10
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Sinorhizobium meliloti
Macromolecule	FIXL (protein)
Unique Ligands	HEM

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1F24 \| pdb_00001f24	Download File View File

CRYSTAL STRUCTURE OF NO COMPLEX OF THR243ALA MUTANTS OF CYTOCHROME P450NOR

Shimizu, H., Park, S.-Y.

(2000) J Inorg Biochem 82: 103-111

Released	2000-11-23
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Fusarium oxysporum
Macromolecule	NITRIC OXIDE REDUCTASE (protein)
Unique Ligands	GOL, HEM, NO

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1F25 \| pdb_00001f25	Download File View File

CRYSTAL STRUCTURE OF NO COMPLEX OF THR243ASN MUTANTS OF CYTOCHROME P450NOR

Shimizu, H., Park, S.-Y.

(2000) J Inorg Biochem 82: 103-111

Released	2000-11-23
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Fusarium oxysporum
Macromolecule	NITRIC OXIDE REDUCTASE (protein)
Unique Ligands	GOL, HEM, NO

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1F26 \| pdb_00001f26	Download File View File

CRYSTAL STRUCTURE OF NO COMPLEX OF THR243VAL MUTANTS OF CYTOCHROME P450NOR

Shimizu, H., Park, S.-Y.

(2000) J Inorg Biochem 82: 103-111

Released	2000-11-23
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Fusarium oxysporum
Macromolecule	NITRIC OXIDE REDUCTASE (protein)
Unique Ligands	GOL, HEM, NO

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1GDV \| pdb_00001gdv	Download File View File

CRYSTAL STRUCTURE OF CYTOCHROME C6 FROM RED ALGA PORPHYRA YEZOENSIS AT 1.57 A RESOLUTION

Yamada, S., Park, S.-Y., Shimizu, H., Shiro, Y., Oku, T.

(2000) Acta Crystallogr D Biol Crystallogr 56: 1577-1582

Released	2001-04-06
Method	X-RAY DIFFRACTION 1.57 Å
Organisms	Pyropia yezoensis
Macromolecule	CYTOCHROME C6 (protein)
Unique Ligands	HEC

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1GEB \| pdb_00001geb	Download File View File

X-RAY CRYSTAL STRUCTURE AND CATALYTIC PROPERTIES OF THR252ILE MUTANT OF CYTOCHROME P450CAM

Hishiki, T., Shimada, H., Nagano, S., Park, S.-Y., Ishimura, Y.

(2000) J Biochem 128: 965-974

Released	2000-11-15
Method	X-RAY DIFFRACTION 2.03 Å
Organisms	Pseudomonas putida
Macromolecule	CYTOCHROME P450-CAM (protein)
Unique Ligands	CAM, HEM

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1GED \| pdb_00001ged	Download File View File

A positive charge route for the access of nadh to heme formed in the distal heme pocket of cytochrome p450nor

Kudo, T., Takaya, N., Park, S.-Y., Shiro, Y., Shoun, H.

(2001) J Biological Chem 276: 5020-5026

Released	2000-11-22
Method	X-RAY DIFFRACTION 2 Å
Organisms	Fusarium oxysporum
Macromolecule	CYTOCHROME P450 55A1 (protein)
Unique Ligands	BR, HEM

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1GEI \| pdb_00001gei	Download File View File

STRUCTURAL CHARACTERIZATION OF N-BUTYL-ISOCYANIDE COMPLEXES OF CYTOCHROMES P450NOR AND P450CAM

Lee, D.-S., Park, S.-Y., Yamane, K., Shiro, Y.

(2001) Biochemistry 40: 2669-2677

Released	2000-11-29
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Fusarium oxysporum
Macromolecule	CYTOCHROME P450 55A1 (protein)
Unique Ligands	HEM, NBN

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1GEJ \| pdb_00001gej	Download File View File

STRUCTURAL CHARACTERIZATION OF N-BUTYL-ISOCYANIDE COMPLEXES OF CYTOCHROMES P450NOR AND P450CAM

lee, D.-S., Park, S.-Y., Yamane, K., Shiro, Y.

(2001) Biochemistry 40: 2669-2677

Released	2000-12-06
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Fusarium oxysporum
Macromolecule	CYTOCHROME P450 55A1 (protein)
Unique Ligands	HEM, NBN

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1GEK \| pdb_00001gek	Download File View File

STRUCTURAL CHARACTERIZATION OF N-BUTYL-ISOCYANIDE COMPLEXES OF CYTOCHROMES P450NOR AND P450CAM

Lee, D.-S., Park, S.-Y., Yamane, K., Shiro, Y.

(2001) Biochemistry 40: 2669-2677

Released	2000-12-06
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Pseudomonas putida
Macromolecule	CYTOCHROME P450CAM (protein)
Unique Ligands	HEM, NBN

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1GEM \| pdb_00001gem	Download File View File

STRUCTURAL CHARACTERIZATION OF N-BUTYL-ISOCYANIDE COMPLEXES OF CYTOCHROMES P450NOR AND P450CAM

Lee, D.-S., Park, S.-Y., Yamane, K., Shiro, Y.

(2001) Biochemistry 40: 2669-2677

Released	2000-12-06
Method	X-RAY DIFFRACTION 2 Å
Organisms	Pseudomonas putida
Macromolecule	CYTOCHROME P450CAM (protein)
Unique Ligands	HEM, NBN

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1IO7 \| pdb_00001io7	Download File View File

THERMOPHILIC CYTOCHROME P450 (CYP119) FROM SULFOLOBUS SOLFATARICUS: HIGH RESOLUTION STRUCTURAL ORIGIN OF ITS THERMOSTABILITY AND FUNCTIONAL PROPERTIES

Park, S.-Y., Yamane, K., Adachi, S., Shiro, Y., Sligar, S.G., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2002) J Inorg Biochem 91: 491-501

Released	2001-02-28
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Saccharolobus solfataricus
Macromolecule	CYTOCHROME P450 CYP119 (protein)
Unique Ligands	HEM

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1IO8 \| pdb_00001io8	Download File View File

Thermophilic cytochrome P450 (CYP119) from sulfolobus solfataricus: High resolution structural origin of its thermostability and functional properties

Park, S.-Y., Yamane, K., Adachi, S., Shiro, Y., Sligar, S.G., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2002) J Inorg Biochem 91: 491-501

Released	2001-03-07
Method	X-RAY DIFFRACTION 2 Å
Organisms	Saccharolobus solfataricus
Macromolecule	CYTOCHROME P450 CYP119 (protein)
Unique Ligands	HEM

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1IO9 \| pdb_00001io9	Download File View File

THERMOPHILIC CYTOCHROME P450 (CYP119) FROM SULFOLOBUS SOLFATARICUS: HIGH RESOLUTION STRUCTURAL ORIGIN OF ITS THERMOSTABILITY AND FUNCTIONAL PROPERTIES

Park, S.-Y., Yamane, K., Adachi, S., Shiro, Y., Sligar, S.G., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2002) J Inorg Biochem 91: 491-501

Released	2001-03-07
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Saccharolobus solfataricus
Macromolecule	CYTOCHROME P450 CYP119 (protein)
Unique Ligands	HEM

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1IRD \| pdb_00001ird	Download File View File

Crystal Structure of Human Carbonmonoxy-Haemoglobin at 1.25 A Resolution

Park, S.-Y., Tame, J.R.H.

To be published

Released	2001-10-17
Method	X-RAY DIFFRACTION 1.25 Å
Organisms	Homo sapiens
Macromolecule	Hemoglobin alpha chain (protein) Hemoglobin beta chain (protein)
Unique Ligands	CMO, HEM

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1IT2 \| pdb_00001it2	Download File View File

Hagfish deoxy hemoglobin

Mito, M., Chong, K.T., Park, S.-Y., Tame, J.R.

(2002) J Biological Chem 277: 21898-21905

Released	2002-01-23
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Eptatretus burgeri
Macromolecule	hemoglobin (protein)
Unique Ligands	HEM

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1IT3 \| pdb_00001it3	Download File View File

Hagfish CO ligand hemoglobin

Mito, M., Chong, K.T., Park, S.-Y., Tame, J.R.

(2002) J Biological Chem 277: 21898-21905

Released	2002-01-23
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Eptatretus burgeri
Macromolecule	hemoglobin (protein)
Unique Ligands	CMO, HEM

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1IUJ \| pdb_00001iuj	Download File View File

The structure of TT1380 protein from thermus thermophilus

Wada, T., Shirouzu, M., Park, S.-Y., Tame, J.R.H., Kuramitsu, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2004) Proteins 55: 778-780

Released	2003-09-09
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Thermus thermophilus
Macromolecule	hypothetical protein TT1380 (protein)
Unique Ligands	ZN

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1IUK \| pdb_00001iuk	Download File View File

The structure of native ID.343 from Thermus thermophilus

Wada, T., Shirouzu, M., Park, S.-Y., Tame, J.R., Kuramitsu, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2003) Acta Crystallogr D Biol Crystallogr 59: 1213-1218

Released	2003-07-15
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Thermus thermophilus
Macromolecule	hypothetical protein TT1466 (protein)

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1IUL \| pdb_00001iul	Download File View File

The structure of cell-free ID.343 from Thermus thermophilus

Wada, T., Shirouzu, M., Park, S.-Y., Tame, J.R., Kuramitsu, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2003) Acta Crystallogr D Biol Crystallogr 59: 1213-1218

Released	2003-07-15
Method	X-RAY DIFFRACTION 2 Å
Organisms	Thermus thermophilus
Macromolecule	hypothetical protein TT1466 (protein)

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1IV1 \| pdb_00001iv1	Download File View File

Structure of 2C-Methyl-D-erythritol-2,4-cyclodiphosphate Synthase

Kishida, H., Wada, T., Unzai, S., Kuzuyama, T., Terada, T., Sirouzu, M., Yokoyama, S., Tame, J.R.H., Park, S.-Y., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2003) Acta Crystallogr D Biol Crystallogr 59: 23-31

Released	2002-09-11
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Thermus thermophilus
Macromolecule	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (protein)

1 to 25 of 148 Structures

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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

Membrane Protein Annotation

Symmetry Type

SCOP Classification

1CL6 | pdb_00001cl6

1CMJ | pdb_00001cmj

1CMN | pdb_00001cmn

1D06 | pdb_00001d06

1EW0 | pdb_00001ew0

1F24 | pdb_00001f24

1F25 | pdb_00001f25

1F26 | pdb_00001f26

1GDV | pdb_00001gdv

1GEB | pdb_00001geb

1GED | pdb_00001ged

1GEI | pdb_00001gei

1GEJ | pdb_00001gej

1GEK | pdb_00001gek

1GEM | pdb_00001gem

1IO7 | pdb_00001io7

1IO8 | pdb_00001io8

1IO9 | pdb_00001io9

1IRD | pdb_00001ird

1IT2 | pdb_00001it2

1IT3 | pdb_00001it3

1IUJ | pdb_00001iuj

1IUK | pdb_00001iuk

1IUL | pdb_00001iul

1IV1 | pdb_00001iv1