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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Source Organism Taxonomy Name (Full Lineage) = "Pyrococcus horikoshii"

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Search Summary

This query matches 709 Structures.

Refinements

Structure Determination Methodology

experimental (709)

Scientific Name of Source Organism

	Pyrococcus horikoshii OT3 (474)
	Pyrococcus horikoshii (235)
	synthetic construct (6)
	Pseudomonas aeruginosa PAO1 (5)
	Homo sapiens (2)
	Aequorea victoria (1)
	Agrobacterium fabrum str. C58 (1)
	Saccharomyces cerevisiae S288C (1)
	Thermoplasma acidophilum (1)

Taxonomy

	Archaea (709)
	Bacteria (6)
	other sequences (6)
	Eukaryota (4)

Experimental Method

	X-RAY DIFFRACTION (674)
	ELECTRON MICROSCOPY (26)
	SOLUTION NMR (11)
	SOLID-STATE NMR (1)

Polymer Entity Type

	Protein (709)
	RNA (15)
	DNA (6)

Refinement Resolution (Å)

	1.0 - 1.5 (26)
	1.5 - 2.0 (203)
	2.0 - 2.5 (275)
	2.5 - 3.0 (121)
	3.0 - 3.5 (44)
	3.5 - 4.0 (21)
	4.0 - 4.5 (8)
	> 4.5 (2)

Release Date

	2000 - 2004 (66)
	2005 - 2009 (351)
	2010 - 2014 (118)
	2015 - 2019 (98)
	2020 - 2024 (71)
	2025 - 2029 (5)

Enzyme Classification Name

	Transferases (206)
	Hydrolases (117)
	Ligases (84)
	Oxidoreductases (24)
	Isomerases (23)
	Lyases (19)
	Translocases (17)

Membrane Protein Annotation

	PDBTM (46)
	MemProtMD (38)
	OPM (35)
	mpstruc (30)

Symmetry Type

	Cyclic (389)
	Asymmetric (268)
	Dihedral (88)
	Tetrahedral (14)
	Helical (1)

SCOP Classification

	Alpha and beta proteins (a/b) (245)
	Alpha and beta proteins (a+b) (145)
	All beta proteins (63)
	All alpha proteins (27)
	Artifacts (24)
	Membrane and cell surface proteins and peptides (7)
	Multi-domain proteins (alpha and beta) (4)

AllSelected

1 to 25 of 709 Structures

Page 1 of 29

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1DJU \| pdb_00001dju	Download File View File

CRYSTAL STRUCTURE OF AROMATIC AMINOTRANSFERASE FROM PYROCOCCUS HORIKOSHII OT3

Matsui, I., Matsui, E., Sakai, Y., Kikuchi, H., Kawarabayashi, H.

(2000) J Biological Chem 275: 4871-4879

Released	2001-04-11
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	AROMATIC AMINOTRANSFERASE (protein)
Unique Ligands	PLP

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1G2I \| pdb_00001g2i	Download File View File

CRYSTAL STRUCTURE OF A NOVEL INTRACELLULAR PROTEASE FROM PYROCOCCUS HORIKOSHII AT 2 A RESOLUTION

Du, X., Choi, I.-G., Kim, R., Jancarik, J., Kim, S.-H., Berkeley Structural Genomics Center (BSGC)

(2000) Proc Natl Acad Sci U S A 97: 14079-14084

Released	2000-11-08
Method	X-RAY DIFFRACTION 2 Å
Organisms	Pyrococcus horikoshii
Macromolecule	PROTEASE I (protein)
Unique Ligands	SO4

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1G8A \| pdb_00001g8a	Download File View File

PYROCOCCUS HORIKOSHII FIBRILLARIN PRE-RRNA PROCESSING PROTEIN

Boisvert, D.C., Kim, S.H., Berkeley Structural Genomics Center (BSGC)

To be published

Released	2003-10-14
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Pyrococcus horikoshii
Macromolecule	FIBRILLARIN-LIKE PRE-RRNA PROCESSING PROTEIN (protein)

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1GD9 \| pdb_00001gd9	Download File View File

CRYSTALL STRUCTURE OF PYROCOCCUS PROTEIN-A1

Ura, H., Harata, K., Matsui, I., Kuramitsu, S.

(2001) J Biochem 129: 173-178

Released	2001-09-22
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Pyrococcus horikoshii
Macromolecule	ASPARTATE AMINOTRANSFERASE (protein)
Unique Ligands	PLP

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1GDE \| pdb_00001gde	Download File View File

CRYSTAL STRUCTURE OF PYROCOCCUS PROTEIN A-1 E-FORM

Ura, H., Harata, K., Matsui, I., Kuramitsu, S.

(2001) J Biochem 129: 173-178

Released	2001-09-23
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Pyrococcus horikoshii
Macromolecule	ASPARTATE AMINOTRANSFERASE (protein)
Unique Ligands	GLU, PLP

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1ILW \| pdb_00001ilw	Download File View File

Crystal Structure of Pyrazinamidase/Nicotinamidase of Pyrococcus horikoshii

Du, X., Kim, S.-H., Berkeley Structural Genomics Center (BSGC)

(2001) Biochemistry 40: 14166-14172

Released	2001-12-12
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Pyrococcus horikoshii
Macromolecule	180 aa long hypothetical Pyrazinamidase/nicotinamidase (protein)

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1IM5 \| pdb_00001im5	Download File View File

Crystal Structure of Pyrazinamidase of Pyrococcus horikoshii in Complex with Zinc

Du, X., Kim, S.-H.

(2001) Biochemistry 40: 14166-14172

Released	2001-12-12
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Pyrococcus horikoshii
Macromolecule	180aa long hypothetical Pyrazinamidase/Nicotinamidase (protein)
Unique Ligands	ZN

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1ION \| pdb_00001ion	Download File View File

THE SEPTUM SITE-DETERMINING PROTEIN MIND COMPLEXED WITH MG-ADP FROM PYROCOCCUS HORIKOSHII OT3

Sakai, N., Yao, M., Itou, H., Watanabe, N., Yumoto, F., Tanokura, M., Tanaka, I.

(2001) Structure 9: 817-826

Released	2001-09-26
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	PROBABLE CELL DIVISION INHIBITOR MIND (protein)
Unique Ligands	ADP, MG

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1IQ8 \| pdb_00001iq8	Download File View File

Crystal Structure of archaeosine tRNA-guanine transglycosylase from Pyrococcus horikoshii

Ishitani, R., Nureki, O., Fukai, S., Kijimoto, T., Nameki, N., Watanabe, M., Kondo, H., Sekine, M., Okada, N., Nishimura, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2002) J Mol Biology 318: 665-677

Released	2002-05-22
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Pyrococcus horikoshii
Macromolecule	ARCHAEOSINE TRNA-GUANINE TRANSGLYCOSYLASE (protein)
Unique Ligands	MG, ZN

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1IQV \| pdb_00001iqv	Download File View File

Crystal Structure Analysis of the archaebacterial ribosomal protein S7

Hosaka, H., Yao, M., Kimura, M., Tanaka, I.

(2001) J Biochem 130: 695-701

Released	2001-08-29
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Pyrococcus horikoshii
Macromolecule	RIBOSOMAL PROTEIN S7 (protein)

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1IRX \| pdb_00001irx	Download File View File

Crystal structure of class I lysyl-tRNA synthetase

Nureki, O., Terada, T., Ishitani, R., Ambrogelly, A., Ibba, M., Soll, D., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2002) Nat Struct Biol 9: 257-262

Released	2002-04-17
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Pyrococcus horikoshii
Macromolecule	lysyl-tRNA synthetase (protein)
Unique Ligands	ZN

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1IT7 \| pdb_00001it7	Download File View File

Crystal structure of archaeosine tRNA-guanine transglycosylase complexed with guanine

Ishitani, R., Nureki, O., Fukai, S., Kijimoto, T., Nameki, N., Watanabe, M., Kondo, H., Sekine, M., Okada, N., Nishimura, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2002) J Mol Biology 318: 665-677

Released	2002-05-22
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Pyrococcus horikoshii
Macromolecule	Archaeosine tRNA-guanine transglycosylase (protein)
Unique Ligands	GUN, MG, ZN

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1IT8 \| pdb_00001it8	Download File View File

Crystal structure of archaeosine tRNA-guanine transglycosylase from Pyrococcus horikoshii complexed with archaeosine precursor, preQ0

Ishitani, R., Nureki, O., Fukai, S., Kijimoto, T., Nameki, N., Watanabe, M., Kondo, H., Sekine, M., Okada, N., Nishimura, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2002) J Mol Biology 318: 665-677

Released	2002-05-22
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Pyrococcus horikoshii
Macromolecule	archaeosine tRNA-guanine transglycosylase (protein)
Unique Ligands	MG, PQ0, ZN

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1IU8 \| pdb_00001iu8	Download File View File

The X-ray Crystal Structure of Pyrrolidone-Carboxylate Peptidase from Hyperthermophilic Archaeon Pyrococcus horikoshii

Sokabe, M., Kawamura, T., Sakai, N., Yao, M., Watanabe, N., Tanaka, I.

(2002) J Struct Funct Genomics 2: 145-154

Released	2002-03-20
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Pyrococcus horikoshii
Macromolecule	Pyrrolidone-carboxylate peptidase (protein)

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1IU9 \| pdb_00001iu9	Download File View File

Crystal structure of the C-terminal domain of aspartate racemase from Pyrococcus horikoshii OT3

Liu, L., Iwata, K., Yohda, M., Miki, K.

(2002) FEBS Lett 528: 114-118

Released	2003-09-09
Method	X-RAY DIFFRACTION 2.04 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	aspartate racemase (protein)
Unique Ligands	CA

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1IXK \| pdb_00001ixk	Download File View File

Crystal Structure Analysis of Methyltransferase Homolog Protein from Pyrococcus Horikoshii

Ishikawa, I., Sakai, N., Yao, M., Watanabe, N., Tamura, T., Tanaka, I.

(2004) Proteins 54: 814-816

Released	2003-09-09
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Pyrococcus horikoshii
Macromolecule	Methyltransferase (protein)

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1IXL \| pdb_00001ixl	Download File View File

Crystal structure of uncharacterized protein PH1136 from Pyrococcus horikoshii

Tajika, Y., Sakai, N., Tanaka, Y., Yao, M., Watanabe, N., Tanaka, I.

(2004) Proteins 55: 210-213

Released	2003-09-09
Method	X-RAY DIFFRACTION 1.94 Å
Organisms	Pyrococcus horikoshii
Macromolecule	hypothetical protein PH1136 (protein)

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1IZ6 \| pdb_00001iz6	Download File View File

Crystal Structure of Translation Initiation Factor 5A from Pyrococcus Horikoshii

Yao, M., Ohsawa, A., Kikukawa, S., Tanaka, I., Kimura, M.

(2003) J Biochem 133: 75-81

Released	2003-01-28
Method	X-RAY DIFFRACTION 2 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	Initiation Factor 5A (protein)

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1J08 \| pdb_00001j08	Download File View File

Crystal structure of glutaredoxin-like protein from Pyrococcus horikoshii

Tanaka, Y., Tanabe, E., Tsumoto, K., Kumagai, I., Yao, M., Tanaka, I.

To be published

Released	2003-05-11
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Pyrococcus horikoshii
Macromolecule	glutaredoxin-like protein (protein)

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1J0A \| pdb_00001j0a	Download File View File

Crystal Structure Analysis of the ACC deaminase homologue

Fujino, A., Ose, T., Honma, M., Yao, M., Tanaka, I.

(2004) J Mol Biology 341: 999-1013

Released	2003-05-12
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	1-aminocyclopropane-1-carboxylate deaminase (protein)
Unique Ligands	IPA, PLP, SO4

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1J0B \| pdb_00001j0b	Download File View File

Crystal Structure Analysis of the ACC deaminase homologue complexed with inhibitor

Fujino, A., Ose, T., Honma, M., Yao, M., Tanaka, I.

(2004) J Mol Biology 341: 999-1013

Released	2003-05-12
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	1-aminocyclopropane-1-carboxylate deaminase (protein)
Unique Ligands	5PA

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1J2B \| pdb_00001j2b	Download File View File

Crystal Structure Of Archaeosine tRNA-Guanine Transglycosylase Complexed With lambda-form tRNA(Val)

Ishitani, R., Nureki, O., Nameki, N., Okada, N., Nishimura, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2003) Cell 113: 383-394

Released	2003-05-27
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Pyrococcus horikoshii
Macromolecule	Archaeosine tRNA-guanine transglycosylase (protein) tRNA(Val) (nucleic acid)
Unique Ligands	MG, ZN

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1J2V \| pdb_00001j2v	Download File View File

Crystal Structure of CutA1 from Pyrococcus Horikoshii

Tanaka, Y., Sakai, N., Yasutake, Y., Yao, M., Tsumoto, K., Kumagai, I., Tanaka, I.

(2004) FEBS Lett 556: 167-174

Released	2004-01-13
Method	X-RAY DIFFRACTION 2 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	102AA long hypothetical periplasmic divalent cation tolerance protein CUTA (protein)