RCSB PDB: Search

1VS3 \| pdb_00001vs3	Download File View File

Crystal Structure of the tRNA Pseudouridine Synthase TruA From Thermus thermophilus HB8

Dong, X., Bessho, Y., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2006) RNA Biol 3: 115-122

Released	2006-12-12
Method	X-RAY DIFFRACTION 2.25 Å
Organisms	Thermus thermophilus HB8
Macromolecule	tRNA pseudouridine synthase A (protein)

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1WFX \| pdb_00001wfx	Download File View File

Crystal Structure of APE0204 from Aeropyrum pernix

Kato-Murayama, M., Bessho, Y., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2005) J Mol Biology 348: 295-305

Released	2004-11-27
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Aeropyrum pernix
Macromolecule	Probable RNA 2'-phosphotransferase (protein)
Unique Ligands	CL, ZN

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1WJX \| pdb_00001wjx	Download File View File

Crystal sturucture of TT0801 from Thermus thermophilus

Bessho, Y., Shibata, R., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2007) Proc Natl Acad Sci U S A 104: 8293-8298

Released	2004-11-29
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Thermus thermophilus
Macromolecule	SsrA-binding protein (protein)
Unique Ligands	K

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1WWR \| pdb_00001wwr	Download File View File

Crystal structure of tRNA adenosine deaminase TadA from Aquifex aeolicus

Kuratani, M., Ishii, R., Bessho, Y., Fukunaga, R., Sengoku, T., Sekine, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2005) J Biological Chem 280: 16002-16008

Released	2005-02-01
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Aquifex aeolicus
Macromolecule	tRNA adenosine deaminase TadA (protein)
Unique Ligands	ZN

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2CV8 \| pdb_00002cv8	Download File View File

Crystal structure of tRNA-intron endonuclease from Sulfolobus tokodaii

Kato-Murayama, M., Bessho, Y., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2005-12-01
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Sulfurisphaera tokodaii
Macromolecule	tRNA-splicing endonuclease (protein)
Unique Ligands	CL

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2CXA \| pdb_00002cxa	Download File View File

Crystal structure of Leucyl/phenylalanyl-tRNA protein transferase from Escherichia coli

Kato-Murayama, M., Bessho, Y., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2007) Protein Sci 16: 528-534

Released	2005-12-28
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Escherichia coli
Macromolecule	Leucyl/phenylalanyl-tRNA-protein transferase (protein)

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2CXC \| pdb_00002cxc	Download File View File

Crystal structure of archaeal transcription termination factor NusA

Shibata, R., Bessho, Y., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2007) Biochem Biophys Res Commun 355: 122-128

Released	2005-12-28
Method	X-RAY DIFFRACTION 2 Å
Organisms	Aeropyrum pernix K1
Macromolecule	NusA (protein)

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2CY1 \| pdb_00002cy1	Download File View File

Crystal structure of APE1850

Shibata, R., Bessho, Y., Umehara, T., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2007) Acta Crystallogr Sect F Struct Biol Cryst Commun 63: 69-73

Released	2006-01-04
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Aeropyrum pernix K1
Macromolecule	NusA protein homolog (protein)

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2CYA \| pdb_00002cya	Download File View File

Crystal structure of tyrosyl-tRNA synthetase from Aeropyrum pernix

Kuratani, M., Sakai, H., Takahashi, M., Yanagisawa, T., Kobayashi, T., Murayama, K., Chen, L., Liu, Z.J., Wang, B.C., Kuroishi, C., Kuramitsu, S., Terada, T., Bessho, Y., Shirouzu, M., Sekine, S.I., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2005) J Mol Biology 355: 395-408

Released	2005-11-22
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Aeropyrum pernix
Macromolecule	Tyrosyl-tRNA synthetase (protein)
Unique Ligands	SO4

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2CZJ \| pdb_00002czj	Download File View File

Crystal structure of the tRNA domain of tmRNA from Thermus thermophilus HB8

Bessho, Y., Shibata, R., Sekine, S., Murayama, K., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2007) Proc Natl Acad Sci U S A 104: 8293-8298

Released	2006-10-31
Method	X-RAY DIFFRACTION 3.01 Å
Organisms	Thermus thermophilus HB8
Macromolecule	SsrA-binding protein (protein) tmRNA (63-MER) (nucleic acid)

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2DBI \| pdb_00002dbi	Download File View File

Crystal Structure of a Hypothetical Protein JW0805 from Escherichia coli

Ihsanawati, Murayama, K., Bessho, Y., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2006-06-15
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Escherichia coli
Macromolecule	Hypothetical protein ybiU (protein)

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2DBN \| pdb_00002dbn	Download File View File

Crystal Structure of a Hypothetical Protein JW0805 at High pH from Escherichia coli

Ihsanawati, Murayama, K., Bessho, Y., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2006-06-15
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Escherichia coli
Macromolecule	Hypothetical protein ybiU (protein)
Unique Ligands	SO4

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2DBO \| pdb_00002dbo	Download File View File

Crystal structure of D-Tyr-tRNA(Tyr) deacylase from Aquifex aeolicus

Ishii, T., Shibata, R., Bessho, Y., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2006-06-15
Method	X-RAY DIFFRACTION 2.76 Å
Organisms	Aquifex aeolicus VF5
Macromolecule	D-tyrosyl-tRNA(Tyr) deacylase (protein)

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2DBS \| pdb_00002dbs	Download File View File

Crystal structure of a hypothetical protein TTHC002 from Thermus thermophilus HB8

Yoshikawa, S., Arai, R., Kamo-Uchikubo, T., Fusatomi, E., Akasaka, R., Bessho, Y., Murayama, K., Terada, T., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2006-06-16
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Thermus thermophilus HB8
Macromolecule	hypothetical protein TTHC002 (protein)

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2DDK \| pdb_00002ddk	Download File View File

Crystal structure of human myo-inositol monophosphatase 2 (IMPA2) (orthorhombic form)

Arai, R., Ito, K., Kamo-Uchikubo, T., Bessho, Y., Ohba, H., Ohnishi, T., Yoshikawa, T., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2007) Proteins 67: 732-742

Released	2007-02-06
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Homo sapiens
Macromolecule	Inositol monophosphatase 2 (protein)

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2DUD \| pdb_00002dud	Download File View File

Crystal structure of human mitochondrial single-stranded DNA-binding protein(hmtSSB)

Dong, X., Bessho, Y., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2007-01-21
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Homo sapiens
Macromolecule	Single-stranded DNA-binding protein (protein)

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2DUL \| pdb_00002dul	Download File View File

Crystal structure of tRNA G26 methyltransferase Trm1 in apo form from Pyrococcus horikoshii

Ihsanawati, Shirouzu, M., Bessho, Y., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2008) J Mol Biology 383: 871-884

Released	2007-01-24
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Pyrococcus horikoshii
Macromolecule	N(2),N(2)-dimethylguanosine tRNA methyltransferase (protein)
Unique Ligands	GOL

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2DYY \| pdb_00002dyy	Download File View File

Crystal structure of putative translation initiation inhibitor PH0854 from Pyrococcus horikoshii

Ihsanawati, Kishishita, S., Murayama, K., Chen, L., Liu, Z.J., Wang, B.C., Shirouzu, M., Bessho, Y., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2007-03-19
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Pyrococcus horikoshii
Macromolecule	UPF0076 protein PH0854 (protein)

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2E21 \| pdb_00002e21	Download File View File

Crystal structure of TilS in a complex with AMPPNP from Aquifex aeolicus.

Kuratani, M., Yoshikawa, Y., Sekine, S., Ishii, T., Shibata, R., Bessho, Y., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2007-11-06
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Aquifex aeolicus
Macromolecule	tRNA(Ile)-lysidine synthase (protein)
Unique Ligands	ANP

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2E87 \| pdb_00002e87	Download File View File

Crystal structure of hypothetical GTP-binding protein PH1320 from Pyrococcus horikoshii OT3, in complex with GDP

Kukimoto-Niino, M., Bessho, Y., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2007-07-24
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Pyrococcus horikoshii OT3
Macromolecule	Hypothetical protein PH1320 (protein)
Unique Ligands	GDP, SO4

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2EGV \| pdb_00002egv	Download File View File

Crystal structure of rRNA methyltransferase with SAM ligand

Dong, X., Shirouzu, M., Bessho, Y., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2007-09-04
Method	X-RAY DIFFRACTION 1.45 Å
Organisms	Aquifex aeolicus
Macromolecule	UPF0088 protein aq_165 (protein)
Unique Ligands	SAM

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2EGW \| pdb_00002egw	Download File View File

Crystal structure of rRNA methyltransferase with SAH ligand

Dong, X., Shirouzu, M., Bessho, Y., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2007-09-04
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Aquifex aeolicus
Macromolecule	UPF0088 protein aq_165 (protein)
Unique Ligands	SAH

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2EJT \| pdb_00002ejt	Download File View File

Complex structure of Trm1 from Pyrococcus horikoshii with S-adenosyl-L-Methionine

Ihsanawati, Shirouzu, M., Bessho, Y., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2008) J Mol Biology 383: 871-884

Released	2007-09-25
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Pyrococcus horikoshii
Macromolecule	N(2),N(2)-dimethylguanosine tRNA methyltransferase (protein)
Unique Ligands	GOL, SAM

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2EJU \| pdb_00002eju	Download File View File

Complex structure of Trm1 from Pyrococcus horikoshii with S-adenosyl-L-Homocystein

Ihsanawati, Shirouzu, M., Bessho, Y., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2008) J Mol Biology 383: 871-884

Released	2007-09-25
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Pyrococcus horikoshii
Macromolecule	N(2),N(2)-dimethylguanosine tRNA methyltransferase (protein)
Unique Ligands	GOL, SAH

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2EK1 \| pdb_00002ek1	Download File View File

Crystal structure of RNA-binding motif of human rna-binding protein 12

Ihsanawati, Bessho, Y., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2008-04-01
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens
Macromolecule	RNA-binding protein 12 (protein)

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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

1VS3 | pdb_00001vs3

1WFX | pdb_00001wfx

1WJX | pdb_00001wjx

1WWR | pdb_00001wwr

2CV8 | pdb_00002cv8

2CXA | pdb_00002cxa

2CXC | pdb_00002cxc

2CY1 | pdb_00002cy1

2CYA | pdb_00002cya

2CZJ | pdb_00002czj

2DBI | pdb_00002dbi

2DBN | pdb_00002dbn

2DBO | pdb_00002dbo

2DBS | pdb_00002dbs

2DDK | pdb_00002ddk

2DUD | pdb_00002dud

2DUL | pdb_00002dul

2DYY | pdb_00002dyy

2E21 | pdb_00002e21

2E87 | pdb_00002e87

2EGV | pdb_00002egv

2EGW | pdb_00002egw

2EJT | pdb_00002ejt

2EJU | pdb_00002eju

2EK1 | pdb_00002ek1