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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "RIKEN Structural Genomics/Proteomics Initiative (RSGI)"

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Search Summary

This query matches 2,751 Structures.

Refinements

Structure Determination Methodology

experimental (2,751)

Scientific Name of Source Organism

	Homo sapiens (1,169)
	Thermus thermophilus HB8 (315)
	Mus musculus (312)
	Thermus thermophilus (246)
	Pyrococcus horikoshii OT3 (199)
	Pyrococcus horikoshii (70)
	Aquifex aeolicus VF5 (48)
	Aquifex aeolicus (40)
	Arabidopsis thaliana (34)
	Escherichia coli (27)

More...

Taxonomy

	Eukaryota (1,569)
	Bacteria (773)
	Archaea (399)
	Eukaryota (eukaryotes) (18)
	Riboviria (4)
	other sequences (4)
	Duplodnaviria (3)
	unclassified sequences (1)

Experimental Method

	SOLUTION NMR (1,397)
	X-RAY DIFFRACTION (1,354)

Polymer Entity Type

	Protein (2,751)
	RNA (27)
	DNA (16)

Refinement Resolution (Å)

	0.5 - 1.0 (2)
	1.0 - 1.5 (56)
	1.5 - 2.0 (534)
	2.0 - 2.5 (537)
	2.5 - 3.0 (181)
	3.0 - 3.5 (39)
	3.5 - 4.0 (2)
	4.0 - 4.5 (3)

Release Date

	1995 - 1999 (15)
	2000 - 2004 (522)
	2005 - 2009 (2,116)
	2010 - 2014 (87)
	2015 - 2019 (4)
	2020 - 2024 (7)

Enzyme Classification Name

	Transferases (474)
	Hydrolases (257)
	Oxidoreductases (139)
	Ligases (187)
	Lyases (129)
	Isomerases (50)
	Translocases (4)

Membrane Protein Annotation

	OPM (30)
	MemProtMD (5)
	PDBTM (5)

Symmetry Type

	Asymmetric (1,929)
	Cyclic (776)
	Dihedral (214)
	Tetrahedral (9)

SCOP Classification

	Artifacts (1,052)
	Alpha and beta proteins (a/b) (585)
	Alpha and beta proteins (a+b) (605)
	All beta proteins (512)
	All alpha proteins (367)
	Small proteins (217)
	Multi-domain proteins (alpha and beta) (34)
	Membrane and cell surface proteins and peptides (5)
	Peptides (2)

AllSelected

1 to 25 of 2,751 Structures

Page 1 of 111

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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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1AA3 \| pdb_00001aa3	Download File View File

C-TERMINAL DOMAIN OF THE E. COLI RECA, NMR, MINIMIZED AVERAGE STRUCTURE

Aihara, H., Ito, Y., Kurumizaka, H., Terada, T., Yokoyama, S., Shibata, T., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(1997) J Mol Biology 274: 213-221

Released	1997-07-23
Method	SOLUTION NMR
Organisms	Escherichia coli K-12
Macromolecule	RECA (protein)

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1AA9 \| pdb_00001aa9	Download File View File

HUMAN C-HA-RAS(1-171)(DOT)GDP, NMR, MINIMIZED AVERAGE STRUCTURE

Ito, Y., Yamasaki, Y., Muto, Y., Kawai, G., Nishimura, S., Miyazawa, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(1997) Biochemistry 36: 9109-9119

Released	1997-07-29
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	C-HA-RAS (protein)
Unique Ligands	GDP, MG

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1B22 \| pdb_00001b22	Download File View File

RAD51 (N-TERMINAL DOMAIN)

Aihara, H., Ito, Y., Kurumizaka, H., Yokoyama, S., Shibata, T., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(1999) J Mol Biology 290: 495-504

Released	1999-12-03
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	DNA REPAIR PROTEIN RAD51 (protein)

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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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1BJW \| pdb_00001bjw	Download File View File

ASPARTATE AMINOTRANSFERASE FROM THERMUS THERMOPHILUS

Nakai, T., Okada, K., Kuramitsu, S., Hirotsu, K., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(1999) Biochemistry 38: 2413-2424

Released	1999-07-22
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Thermus thermophilus HB8
Macromolecule	ASPARTATE AMINOTRANSFERASE (protein)
Unique Ligands	PO4

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1BKG \| pdb_00001bkg	Download File View File

ASPARTATE AMINOTRANSFERASE FROM THERMUS THERMOPHILUS WITH MALEATE

Nakai, T., Okada, K., Kuramitsu, S., Hirotsu, K., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(1999) Biochemistry 38: 2413-2424

Released	1999-07-22
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Thermus thermophilus HB8
Macromolecule	ASPARTATE AMINOTRANSFERASE (protein)
Unique Ligands	MAE, PMP

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1BW6 \| pdb_00001bw6	Download File View File

HUMAN CENTROMERE PROTEIN B (CENP-B) DNA BINDIGN DOMAIN RP1

Iwahara, J., Kigawa, T., Kitagawa, K., Masumoto, H., Okazaki, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(1998) EMBO J 17: 827-837

Released	1998-10-07
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	PROTEIN (CENTROMERE PROTEIN B) (protein)

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1D2M \| pdb_00001d2m	Download File View File

UVRB PROTEIN OF THERMUS THERMOPHILUS HB8; A NUCLEOTIDE EXCISION REPAIR ENZYME

Nakagawa, N., Sugahara, M., Masui, R., Kato, R., Fukuyama, K., Kuramitsu, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(1999) J Biochem 126: 986-990

Released	2000-03-22
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Thermus thermophilus HB8
Macromolecule	EXCINUCLEASE ABC SUBUNIT B (protein)
Unique Ligands	BOG, SO4

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1D8J \| pdb_00001d8j	Download File View File

SOLUTION STRUCTURE OF THE CENTRAL CORE DOMAIN OF TFIIE BETA

Okuda, M., Watanabe, Y., Okamura, H., Hanaoka, F., Ohkuma, Y., Nishimura, Y., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2000) EMBO J 19: 1346-1356

Released	2000-04-26
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	GENERAL TRANSCRIPTION FACTOR TFIIE-BETA (protein)

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1D8K \| pdb_00001d8k	Download File View File

SOLUTION STRUCTURE OF THE CENTRAL CORE DOMAIN OF TFIIE BETA

Okuda, M., Watanabe, Y., Okamura, H., Hanaoka, F., Ohkuma, Y., Nishimura, Y., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2000) EMBO J 19: 1346-1356

Released	2000-04-26
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	GENERAL TRANSCRIPTION FACTOR TFIIE-BETA (protein)

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1D8Z \| pdb_00001d8z	Download File View File

SOLUTION STRUCTURE OF THE FIRST RNA-BINDING DOMAIN (RBD1) OF HU ANTIGEN C (HUC)

Inoue, M., Muto, Y., Sakamoto, H., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2000) Nucleic Acids Res 28: 1743-1750

Released	2000-04-07
Method	SOLUTION NMR
Organisms	Mus musculus
Macromolecule	HU ANTIGEN C (protein)

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1D9A \| pdb_00001d9a	Download File View File

SOLUTION STRUCTURE OF THE SECOND RNA-BINDING DOMAIN (RBD2) OF HU ANTIGEN C (HUC)

Inoue, M., Muto, Y., Sakamoto, H., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2000) Nucleic Acids Res 28: 1743-1750

Released	2000-04-07
Method	SOLUTION NMR
Organisms	Mus musculus
Macromolecule	HU ANTIGEN C (protein)

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1EE8 \| pdb_00001ee8	Download File View File

CRYSTAL STRUCTURE OF MUTM (FPG) PROTEIN FROM THERMUS THERMOPHILUS HB8

Sugahara, M., Mikawa, T., Kumasaka, T., Yamamoto, M., Kato, R., Fukuyama, K., Inoue, Y., Kuramitsu, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2000) EMBO J 19: 3857-3869

Released	2001-01-31
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Thermus thermophilus HB8
Macromolecule	MUTM (FPG) PROTEIN (protein)
Unique Ligands	ZN

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1EF5 \| pdb_00001ef5	Download File View File

SOLUTION STRUCTURE OF THE RAS-BINDING DOMAIN OF RGL

Kigawa, T., Endo, M., Ito, Y., Shirouzu, M., Kikuchi, A., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(1998) FEBS Lett 441: 413-418

Released	2000-02-23
Method	SOLUTION NMR
Organisms	Mus musculus
Macromolecule	RGL (protein)

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1FEX \| pdb_00001fex	Download File View File

SOLUTION STRUCTURE OF MYB-DOMAIN OF HUMAN RAP1

Hanaoka, S., Nishimura, Y., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2001) J Mol Biology 312: 167-175

Released	2001-09-19
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	TRF2-INTERACTING TELOMERIC RAP1 PROTEIN (protein)

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1FJD \| pdb_00001fjd	Download File View File

HUMAN PARVULIN-LIKE PEPTIDYL PROLYL CIS/TRANS ISOMERASE, HPAR14

Terada, T., Shirouzu, M., Fukumori, Y., Fujimori, F., Ito, Y., Kigawa, T., Yokoyama, S., Uchida, T., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2001) J Mol Biology 305: 917-926

Released	2001-08-08
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	PEPTIDYL PROLYL CIS/TRANS ISOMERASE (PPIASE) (protein)

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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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1GD7 \| pdb_00001gd7	Download File View File

CRYSTAL STRUCTURE OF A BIFUNCTIONAL PROTEIN (CSAA) WITH EXPORT-RELATED CHAPERONE AND TRNA-BINDING ACTIVITIES.

Shibata, T., Inoue, Y., Vassylyev, D.G., Kawaguchi, S., Yokoyama, S., Muller, J., Linde, D., Kuramitsu, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2001) EMBO J 20: 562-569

Released	2001-09-22
Method	X-RAY DIFFRACTION 2 Å
Organisms	Thermus thermophilus
Macromolecule	CSAA PROTEIN (protein)

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1GD8 \| pdb_00001gd8	Download File View File

THE CRYSTAL STRUCTURE OF BACTERIA-SPECIFIC L17 RIBOSOMAL PROTEIN.

Vassylyev, D.G., Shirouzu, M., Wada, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2001-09-22
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Thermus thermophilus
Macromolecule	50S RIBOSOMAL PROTEIN L17 (protein)

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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)