RCSB PDB: Search

1A8H \| pdb_00001a8h	Download File View File

METHIONYL-TRNA SYNTHETASE FROM THERMUS THERMOPHILUS

Sugiura, I., Nureki, O., Ugaji, Y., Kuwabara, S., Lober, B., Giege, R., Moras, D., Yokoyama, S., Konno, M., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2000) Structure 8: 197-208

Released	1999-05-04
Method	X-RAY DIFFRACTION 2 Å
Organisms	Thermus thermophilus HB8
Macromolecule	METHIONYL-TRNA SYNTHETASE (protein)
Unique Ligands	ZN

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1B7F \| pdb_00001b7f	Download File View File

SXL-LETHAL PROTEIN/RNA COMPLEX

Handa, N., Nureki, O., Kurimoto, K., Kim, I., Sakamoto, H., Shimura, Y., Muto, Y., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(1999) Nature 398: 579-585

Released	1999-05-03
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Drosophila melanogaster
Macromolecule	PROTEIN (SXL-LETHAL PROTEIN) (protein) RNA (5'-R(PGPUPUPGPUPUPUPUPUPUPUPU)-3') (nucleic acid)

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1G59 \| pdb_00001g59	Download File View File

GLUTAMYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(GLU).

Sekine, S., Nureki, O., Shimada, A., Vassylyev, D.G., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2001) Nat Struct Biol 8: 203-206

Released	2001-09-01
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Thermus thermophilus
Macromolecule	GLUTAMYL-TRNA SYNTHETASE (protein) TRNA(GLU) (nucleic acid)

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1GAX \| pdb_00001gax	Download File View File

CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS VALYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(VAL) AND VALYL-ADENYLATE ANALOGUE

Fukai, S., Nureki, O., Sekine, S., Shimada, A., Tao, J., Vassylyev, D.G., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2000) Cell 103: 793-803

Released	2000-12-06
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Thermus thermophilus
Macromolecule	VALYL-TRNA SYNTHETASE (protein) TRNA(VAL) (nucleic acid)
Unique Ligands	VAA, ZN

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1GLN \| pdb_00001gln	Download File View File

ARCHITECTURES OF CLASS-DEFINING AND SPECIFIC DOMAINS OF GLUTAMYL-TRNA SYNTHETASE

Nureki, O., Vassylyev, D.G., Katayanagi, K., Shimizu, T., Sekine, S., Kigawa, T., Miyazawa, T., Yokoyama, S., Morikawa, K., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(1995) Science 267: 1958-1965

Released	1995-10-15
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Thermus thermophilus HB8
Macromolecule	GLUTAMYL-TRNA SYNTHETASE (protein)

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1HLV \| pdb_00001hlv	Download File View File

CRYSTAL STRUCTURE OF CENP-B(1-129) COMPLEXED WITH THE CENP-B BOX DNA

Tanaka, Y., Nureki, O., Kurumizaka, H., Fukai, S., Kawaguchi, S., Ikuta, M., Iwahara, J., Okazaki, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2001) EMBO J 20: 6612-6618

Released	2002-01-11
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Homo sapiens
Macromolecule	MAJOR CENTROMERE AUTOANTIGEN B (protein) CENP-B BOX DNA (nucleic acid)

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1HZD \| pdb_00001hzd	Download File View File

CRYSTAL STRUCTURE OF HUMAN AUH PROTEIN, AN RNA-BINDING HOMOLOGUE OF ENOYL-COA HYDRATASE

Kurimoto, K., Fukai, S., Nureki, O., Muto, Y., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2001) Structure 9: 1253-1263

Released	2001-12-12
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens
Macromolecule	AU-BINDING PROTEIN/ENOYL-COA HYDRATASE (protein)

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1ILE \| pdb_00001ile	Download File View File

ISOLEUCYL-TRNA SYNTHETASE

Nureki, O., Vassylyev, D.G., Tateno, M., Shimada, A., Nakama, T., Fukai, S., Konno, M., Schimmel, P., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(1998) Science 280: 578-582

Released	1999-04-13
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Thermus thermophilus HB8
Macromolecule	ISOLEUCYL-TRNA SYNTHETASE (protein)
Unique Ligands	ZN

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1IPA \| pdb_00001ipa	Download File View File

CRYSTAL STRUCTURE OF RNA 2'-O RIBOSE METHYLTRANSFERASE

Nureki, O., Shirouzu, M., Hashimoto, K., Ishitani, R., Terada, T., Tamakoshi, M., Oshima, T., Chijimatsu, M., Takio, K., Vassylyev, D.G., Shibata, T., Inoue, Y., Kuramitsu, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2002) Acta Crystallogr D Biol Crystallogr 58: 1129-1137

Released	2002-07-10
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Thermus thermophilus
Macromolecule	RNA 2'-O-RIBOSE METHYLTRANSFERASE (protein)

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1IQ0 \| pdb_00001iq0	Download File View File

THERMUS THERMOPHILUS ARGINYL-TRNA SYNTHETASE

Shimada, A., Nureki, O., Goto, M., Takahashi, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2001) Proc Natl Acad Sci U S A 98: 13537-13542

Released	2001-11-28
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Thermus thermophilus
Macromolecule	ARGINYL-TRNA SYNTHETASE (protein)

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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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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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1IU3 \| pdb_00001iu3	Download File View File

CRYSTAL STRUCTURE OF THE E.COLI SEQA PROTEIN COMPLEXED WITH HEMIMETHYLATED DNA

Fujikawa, N., Kurumizaka, H., Nureki, O., Tanaka, Y., Yamazoe, M., Hiraga, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2004) Nucleic Acids Res 32: 82-92

Released	2003-06-17
Method	X-RAY DIFFRACTION 3 Å
Organisms	Escherichia coli
Macromolecule	SeqA protein (protein) 5'-D(APAPGPGPAPTPCPCPAPA)-3' (nucleic acid) 5'-D(TPTPGPGPAPTPCPCPTPT)-3' (nucleic acid)

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1IUG \| pdb_00001iug	Download File View File

The crystal structure of aspartate aminotransferase which belongs to subgroup IV from Thermus thermophilus

Katsura, Y., Shirouzu, M., Yamaguchi, H., Ishitani, R., Nureki, O., Kuramitsu, S., Hayashi, H., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2004) Proteins 55: 487-492

Released	2003-11-25
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Thermus thermophilus
Macromolecule	putative aspartate aminotransferase (protein)
Unique Ligands	PO4

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1IVO \| pdb_00001ivo	Download File View File

Crystal Structure of the Complex of Human Epidermal Growth Factor and Receptor Extracellular Domains.

Ogiso, H., Ishitani, R., Nureki, O., Fukai, S., Yamanaka, M., Kim, J.H., Saito, K., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2002) Cell 110: 775-787

Released	2002-10-16
Method	X-RAY DIFFRACTION 3.3 Å
Organisms	Homo sapiens
Macromolecule	Epidermal Growth Factor Receptor (protein) Epidermal growth factor (protein)
Unique Ligands	NAG
Unique branched monosaccharides	NAG

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1IVS \| pdb_00001ivs	Download File View File

CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS VALYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(VAL) AND VALYL-ADENYLATE ANALOGUE

Fukai, S., Nureki, O., Sekine, S.-I., Shimada, A., Vassylyev, D.G., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2003) RNA 9: 100-111

Released	2003-02-11
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Thermus thermophilus
Macromolecule	Valyl-tRNA synthetase (protein) tRNA (Val) (nucleic acid)
Unique Ligands	VAA

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1IYW \| pdb_00001iyw	Download File View File

Preliminary Structure of Thermus thermophilus Ligand-Free Valyl-tRNA Synthetase

Fukai, S., Nureki, O., Sekine, S., Shimada, A., Vassylyev, D.G., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2003) RNA 9: 100-111

Released	2003-06-17
Method	X-RAY DIFFRACTION 4 Å
Organisms	Thermus thermophilus
Macromolecule	Valyl-tRNA Synthetase (protein)

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1J09 \| pdb_00001j09	Download File View File

Crystal structure of Thermus thermophilus glutamyl-tRNA synthetase complexed with ATP and Glu

Sekine, S., Nureki, O., Dubois, D.Y., Bernier, S., Chenevert, R., Lapointe, J., Vassylyev, D.G., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2003) EMBO J 22: 676-688

Released	2003-02-25
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Thermus thermophilus
Macromolecule	Glutamyl-tRNA synthetase (protein)
Unique Ligands	ATP, GLU, MG

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1J1U \| pdb_00001j1u	Download File View File

Crystal structure of archaeal tyrosyl-tRNA synthetase complexed with tRNA(Tyr) and L-tyrosine

Kobayashi, T., Nureki, O., Ishitani, R., Tukalo, M., Cusack, S., Sakamoto, K., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2003) Nat Struct Biol 10: 425-432

Released	2003-06-03
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Methanocaldococcus jannaschii
Macromolecule	Tyrosyl-tRNA synthetase (protein) tRNA(Tyr) (nucleic acid)
Unique Ligands	MG, TYR

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1J1V \| pdb_00001j1v	Download File View File

Crystal structure of DnaA domainIV complexed with DnaAbox DNA

Fujikawa, N., Kurumizaka, H., Nureki, O., Terada, T., Shirouzu, M., Katayama, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2003) Nucleic Acids Res 31: 2077-2086

Released	2003-04-22
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Escherichia coli
Macromolecule	Chromosomal replication initiator protein dnaA (protein) 5'-D(CPCPTPGPTPGPGPAPTPAPAPCPA)-3' (nucleic acid) 5'-D(TPGPTPTPAPTPCPCPAPCPAPGPG)-3' (nucleic acid)

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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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1J3E \| pdb_00001j3e	Download File View File

Crystal Structure of the E.coli SeqA protein complexed with N6-methyladenine- guanine mismatch DNA

Fujikawa, N., Kurumizaka, H., Nureki, O., Tanaka, Y., Yamazoe, M., Hiraga, S., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2004) Nucleic Acids Res 32: 82-92

Released	2004-05-18
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Escherichia coli
Macromolecule	SeqA protein (protein) 5'-D(APAPGPGP(6MA)PTPCPCPAPA)-3' (nucleic acid) 5'-D(TPTPGPGPAPGPCPCPTPT)-3' (nucleic acid)

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1JZQ \| pdb_00001jzq	Download File View File

Isoleucyl-tRNA synthetase Complexed with Isoleucyl-adenylate analogue

Nakama, T., Nureki, O., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2001) J Biological Chem 276: 47387-47393

Released	2001-12-21
Method	X-RAY DIFFRACTION 3 Å
Organisms	Thermus thermophilus
Macromolecule	Isoleucyl-tRNA synthetase (protein)
Unique Ligands	ILA, ZN

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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

1A8H | pdb_00001a8h

1B7F | pdb_00001b7f

1G59 | pdb_00001g59

1GAX | pdb_00001gax

1GLN | pdb_00001gln

1HLV | pdb_00001hlv

1HZD | pdb_00001hzd

1ILE | pdb_00001ile

1IPA | pdb_00001ipa

1IQ0 | pdb_00001iq0

1IQ8 | pdb_00001iq8

1IRX | pdb_00001irx

1IT7 | pdb_00001it7

1IT8 | pdb_00001it8

1IU3 | pdb_00001iu3

1IUG | pdb_00001iug

1IVO | pdb_00001ivo

1IVS | pdb_00001ivs

1IYW | pdb_00001iyw

1J09 | pdb_00001j09

1J1U | pdb_00001j1u

1J1V | pdb_00001j1v

1J2B | pdb_00001j2b

1J3E | pdb_00001j3e

1JZQ | pdb_00001jzq