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232,829 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Doi, M."

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Search Summary

This query matches 8 Structures.

Refinements

Structure Determination Methodology

experimental (8)

Scientific Name of Source Organism

	Homo sapiens (2)
	synthetic construct (2)
	Carica papaya (1)
	Drosophila melanogaster (1)
	Paracoccus denitrificans (1)
	Saimiriine herpesvirus 2 (1)

Taxonomy

	Eukaryota (4)
	other sequences (2)
	Bacteria (1)
	Duplodnaviria (1)

Experimental Method

X-RAY DIFFRACTION (8)

Polymer Entity Type

	Protein (6)
	DNA (2)

Refinement Resolution (Å)

	0.5 - 1.0 (1)
	1.0 - 1.5 (1)
	1.5 - 2.0 (3)
	2.0 - 2.5 (2)
	3.0 - 3.5 (1)

Release Date

	1990 - 1994 (2)
	2005 - 2009 (1)
	2010 - 2014 (2)
	2015 - 2019 (1)
	2020 - 2024 (2)

Enzyme Classification Name

	Oxidoreductases (1)
	Hydrolases (1)

Symmetry Type

	Asymmetric (4)
	Helical (1)
	Cyclic (1)

SCOP Classification

	All beta proteins (1)
	Small proteins (1)
	Alpha and beta proteins (a+b) (1)

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1 to 8 of 8 Structures

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1PIP	Download File View File

CRYSTAL STRUCTURE OF PAPAIN-SUCCINYL-GLN-VAL-VAL-ALA-ALA-P-NITROANILIDE COMPLEX AT 1.7 ANGSTROMS RESOLUTION: NONCOVALENT BINDING MODE OF A COMMON SEQUENCE OF ENDOGENOUS THIOL PROTEASE INHIBITORS

Yamamoto, A., Tomoo, K., Doi, M., Ohishi, H., Inoue, M., Ishida, T., Yamamoto, D., Tsuboi, S., Okamoto, H., Okada, Y.

(1992) Biochemistry 31: 11305-11309

Released	1993-10-31
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Carica papaya
Macromolecule	Papain (protein) SUCCINYL-GLN-VAL-VAL-ALA-ALA-P-NITROANILIDE (protein)

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1VTU	Download File View File

Structural characteristics of enantiomorphic DNA: Crystal analysis of racemates of the D(CGCGCG) duplex

Doi, M., Inoue, M., Tomoo, K., Ishida, T., Ueda, Y., Akagi, M., Urata, H.

(1993) J Am Chem Soc 115: 10432-10433

Released	2011-07-13
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	synthetic construct
Macromolecule	DNA (5'-D(CPGPCPGPCPG)-3') (nucleic acid)

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1WA9	Download File View File

Crystal Structure of the PAS repeat region of the Drosophila clock protein PERIOD

Yildiz, O., Doi, M., Yujnovsky, I., Cardone, L., Berndt, A., Hennig, S., Schulze, S., Urbanke, C., Sassone-Corsi, P., Wolf, E.

(2005) Mol Cell 17: 69

Released	2005-01-12
Method	X-RAY DIFFRACTION 3.15 Å
Organisms	Drosophila melanogaster
Macromolecule	PERIOD CIRCADIAN PROTEIN (protein)

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2BBK	Download File View File

CRYSTAL STRUCTURE OF THE QUINOPROTEIN METHYLAMINE DEHYDROGENASE FROM PARACOCCUS DENITRIFICANS AT 1.75 ANGSTROMS

Chen, L., Mathews, F.S.

(1998) J Mol Biology 276: 131-149

Released	1994-01-31
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Paracoccus denitrificans
Macromolecule	METHYLAMINE DEHYDROGENASE (HEAVY SUBUNIT) (protein) METHYLAMINE DEHYDROGENASE (LIGHT SUBUNIT) (protein)

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3B2C	Download File View File

Crystal structure of the collagen triple helix model [{PRO-HYP(R)-GLY}4-{HYP(S)-Pro-GLY}2-{PRO-HYP(R)-GLY}4]3

Motooka, D., Kawahara, K., Nakamura, S., Doi, M., Nishi, Y., Nishiuchi, Y., Nakazawa, T., Yoshida, T., Ohkubo, T., Kobayashi, Y., Kang, Y.K., Uchiyama, S.

(2011) Biopolymers 98: 111-121

Released	2012-04-04
Method	X-RAY DIFFRACTION 1.36 Å
Organisms	Saimiriine herpesvirus 2
Macromolecule	Collagen-like peptide (protein)

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5JZQ	Download File View File

Ultrahigh-resolution centrosymmetric crystal structure of Z-DNA reveals massive presence of multiple conformations

Drozdzal, P., Gilski, M., Jaskolski, M.

(2016) Acta Crystallogr D Struct Biol 72: 1203-1211

Released	2016-11-09
Method	X-RAY DIFFRACTION 0.78 Å
Organisms	synthetic construct
Macromolecule	DNA (5'-D(CPGPCPGPCPG)-3') (nucleic acid)
Unique Ligands	MG

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6KXX	Download File View File

Human PPAR alpha ligand binding domain in complex with a synthetic agonist (compound A)

Yoshida, T., Tachibana, K., Oki, H., Doi, M., Fukuda, S., Yuzuriha, T., Tabata, R., Ishimoto, K., Kawahara, K., Ohkubo, T., Miyachi, H., Doi, T.

(2020) Sci Rep 10: 7623-7623

Released	2020-05-20
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Homo sapiens
Macromolecule	PGC1alpha (protein) Peroxisome proliferator-activated receptor alpha (protein)
Unique Ligands	T02

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6KXY	Download File View File

Human PPAR alpha ligand binding domain in complex with a synthetic agonist (compound B)

Yoshida, T., Tachibana, K., Oki, H., Doi, M., Fukuda, S., Yuzuriha, T., Tabata, R., Ishimoto, K., Kawahara, K., Ohkubo, T., Miyachi, H., Doi, T.

(2020) Sci Rep 10: 7623-7623

Released	2020-05-20
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens
Macromolecule	PGC1alpha (protein) Peroxisome proliferator-activated receptor alpha (protein)
Unique Ligands	T06