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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Yamano, A."

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Search Summary

This query matches 924 Structures.

Refinements

Structure Determination Methodology

experimental (924)

Scientific Name of Source Organism

	Homo sapiens (466)
	Mus musculus (99)
	Severe acute respiratory syndrome coronavirus 2 (53)
	synthetic construct (40)
	Bos taurus (28)
	Saccharomyces cerevisiae S288C (26)
	Chloroflexus aurantiacus J-10-fl (24)
	Saccharomyces cerevisiae (20)
	Arabidopsis thaliana (18)
	Schizosaccharomyces pombe 972h- (15)

More...

Taxonomy

	Eukaryota (718)
	Bacteria (150)
	Riboviria (96)
	other sequences (40)
	Eukaryota (eukaryotes) (11)
	Archaea (8)
	Varidnaviria (7)
	Duplodnaviria (1)
	Viruses incertae sedis (1)

Experimental Method

	X-RAY DIFFRACTION (642)
	ELECTRON MICROSCOPY (222)
	SOLUTION NMR (60)

Polymer Entity Type

	Protein (905)
	RNA (83)
	NA-hybrid (14)
	DNA (6)

Refinement Resolution (Å)

	0.5 - 1.0 (1)
	1.0 - 1.5 (35)
	1.5 - 2.0 (177)
	2.0 - 2.5 (239)
	2.5 - 3.0 (168)
	3.0 - 3.5 (118)
	3.5 - 4.0 (65)
	4.0 - 4.5 (27)
	> 4.5 (34)

Release Date

	1990 - 1994 (2)
	1995 - 1999 (7)
	2000 - 2004 (36)
	2005 - 2009 (94)
	2010 - 2014 (165)
	2015 - 2019 (239)
	2020 - 2024 (357)
	2025 - 2029 (24)

Enzyme Classification Name

	Hydrolases (175)
	Transferases (229)
	Oxidoreductases (32)
	Translocases (11)
	Ligases (23)
	Isomerases (11)
	Lyases (4)

Membrane Protein Annotation

	PDBTM (61)
	MemProtMD (39)
	mpstruc (35)
	OPM (39)

Symmetry Type

	Asymmetric (649)
	Cyclic (260)
	Dihedral (19)
	Helical (1)
	Icosahedral (2)
	Tetrahedral (2)

SCOP Classification

	All beta proteins (92)
	Alpha and beta proteins (a+b) (116)
	Alpha and beta proteins (a/b) (72)
	Artifacts (76)
	All alpha proteins (23)
	Multi-domain proteins (alpha and beta) (16)
	Small proteins (14)
	Coiled coil proteins (3)

AllSelected

1 to 25 of 924 Structures

Page 1 of 37

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1A8K \| pdb_00001a8k	Download File View File

CRYSTALLOGRAPHIC ANALYSIS OF HUMAN IMMUNODEFICIENCY VIRUS 1 PROTEASE WITH AN ANALOG OF THE CONSERVED CA-P2 SUBSTRATE: INTERACTIONS WITH FREQUENTLY OCCURRING GLUTAMIC ACID RESIDUE AT P2' POSITION OF SUBSTRATES

Weber, I.T., Wu, J., Adomat, J., Harrison, R.W., Kimmel, A.R., Wondrak, E.M., Louis, J.M.

(1997) Eur J Biochem 249: 523-530

Released	1999-01-13
Method	X-RAY DIFFRACTION 2 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	HIV PROTEASE (protein)
Unique Ligands	0Q4

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1A8M \| pdb_00001a8m	Download File View File

TUMOR NECROSIS FACTOR ALPHA, R31D MUTANT

Reed, C., Fu, Z.-Q., Wu, J., Xue, Y.-N., Harrison, R.W., Chen, M.-J., Weber, I.T.

(1997) Protein Eng 10: 1101-1107

Released	1998-06-17
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Homo sapiens
Macromolecule	TUMOR NECROSIS FACTOR ALPHA (protein)

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1A94 \| pdb_00001a94	Download File View File

STRUCTURAL BASIS FOR SPECIFICITY OF RETROVIRAL PROTEASES

Wu, J., Adomat, J.M., Ridky, T.W., Louis, J.M., Leis, J., Harrison, R.W., Weber, I.T.

(1998) Biochemistry 37: 4518-4526

Released	1999-01-13
Method	X-RAY DIFFRACTION 2 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	PROTEASE (protein)
Unique Ligands	0Q4

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1BAI \| pdb_00001bai	Download File View File

Crystal structure of Rous sarcoma virus protease in complex with inhibitor

Wu, J., Adomat, J.M., Ridky, T.W., Louis, J.M., Leis, J., Harrison, R.W., Weber, I.T.

(1998) Biochemistry 37: 4518-4526

Released	1999-01-13
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Rous sarcoma virus
Macromolecule	PROTEASE (protein)
Unique Ligands	0Q4

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1CXR \| pdb_00001cxr	Download File View File

AUTOMATED 2D NOESY ASSIGNMENT AND STRUCTURE CALCULATION OF CRAMBIN(S22/I25) WITH SELF-CORRECTING DISTANCE GEOMETRY BASED NOAH/DIAMOD PROGRAMS

Xu, Y., Wu, J., Gorenstein, D., Braun, W.

(1999) J Magn Reson (1969 136: 76-85

Released	1999-09-07
Method	SOLUTION NMR
Organisms	Crambe hispanica subsp. abyssinica
Macromolecule	CRAMBIN (protein)

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1DU9 \| pdb_00001du9	Download File View File

SOLUTION STRUCTURE OF BMP02, A NATURAL SCORPION TOXIN WHICH BLOCKS APAMIN-SENSITIVE CALCIUM-ACTIVATED POTASSIUM CHANNELS, 25 STRUCTURES

Xu, Y., Wu, J., Pei, J., Shi, Y., Ji, Y., Tong, Q.

(2000) Biochemistry 39: 13669-13675

Released	2000-02-04
Method	SOLUTION NMR
Organisms	Olivierus martensii
Macromolecule	BMP02 NEUROTOXIN (protein)

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1EHB \| pdb_00001ehb	Download File View File

CRYSTAL STRUCTURE OF RECOMBINANT TRYPSIN-SOLUBILIZED FRAGMENT OF CYTOCHROME B5

Wu, J., Gan, J.-H., Xia, Z.-X., Wang, Y.-H., Wang, W.-H., Xue, L.-L., Xie, Y., Huang, Z.-X.

(2000) Proteins 40: 249-257

Released	2000-08-09
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Bos taurus
Macromolecule	PROTEIN (CYTOCHROME B5) (protein)
Unique Ligands	HEM

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1ERY \| pdb_00001ery	Download File View File

PHEROMONE ER-11, NMR

Luginbuhl, P., Wu, J., Zerbe, O., Ortenzi, C., Luporini, P., Wuthrich, K.

(1996) Protein Sci 5: 1512-1522

Released	1996-08-17
Method	SOLUTION NMR
Organisms	Euplotes raikovi
Macromolecule	PHEROMONE ER-11 (protein)

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1ES1 \| pdb_00001es1	Download File View File

CRYSTAL STRUCTURE OF VAL61HIS MUTANT OF TRYPSIN-SOLUBILIZED FRAGMENT OF CYTOCHROME B5

Wu, J., Gan, J.-H., Xia, Z.-X., Wang, Y.-H., Wang, W.-H., Xue, L.-L., Xie, Y., Huang, Z.-X.

(2000) Proteins 40: 249-257

Released	2000-08-09
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Bos taurus
Macromolecule	CYTOCHROME B5 (protein)
Unique Ligands	HEM

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1HYR \| pdb_00001hyr	Download File View File

CRYSTAL STRUCTURE OF HUMAN MICA IN COMPLEX WITH NATURAL KILLER CELL RECEPTOR NKG2D

Li, P., Strong, R.K.

(2001) Nat Immunol 2: 443-451

Released	2001-05-23
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Homo sapiens
Macromolecule	MHC CLASS I CHAIN-RELATED PROTEIN A (protein) NKG2-D TYPE II INTEGRAL MEMBRANE PROTEIN (protein)

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1J3H \| pdb_00001j3h	Download File View File

Crystal structure of apoenzyme cAMP-dependent protein kinase catalytic subunit

Akamine, P., Madhusudan, Wu, J., Xuong, N.H., Ten Eyck, L.F., Taylor, S.S.

(2003) J Mol Biology 327: 159-171

Released	2003-03-04
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Mus musculus
Macromolecule	cAMP-dependent protein kinase, alpha-catalytic subunit (protein)
Unique Ligands	MPD

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1JFM \| pdb_00001jfm	Download File View File

CRYSTAL STRUCTURE OF MURINE NK CELL LIGAND RAE-1 BETA

Li, P., Strong, R.K.

(2002) Immunity 16: 77-86

Released	2002-02-20
Method	X-RAY DIFFRACTION 2.85 Å
Organisms	Mus musculus
Macromolecule	retinoic acid early transcript beta (protein)

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1K99 \| pdb_00001k99	Download File View File

Solution Structure of the first HMG box in human Upstream binding factor

Xu, Y., Yang, W., Wu, J., Shi, Y.

(2002) Biochemistry 41: 5415-5420

Released	2001-11-14
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Upstream binding factor 1 (protein)

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1KKX \| pdb_00001kkx	Download File View File

Solution structure of the DNA-binding domain of ADR6

Tu, X., Wu, J., Xu, Y., Shi, Y.

(2001) J Biomol NMR 21: 187-188

Released	2002-07-17
Method	SOLUTION NMR
Organisms	Saccharomyces cerevisiae
Macromolecule	Transcription regulatory protein ADR6 (protein)

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1KN5 \| pdb_00001kn5	Download File View File

SOLUTION STRUCTURE OF ARID DOMAIN OF ADR6 FROM SACCHAROMYCES CEREVISIAE

Tu, X., Wu, J., Xu, Y., Shi, Y.

(2001) J Biomol NMR 21: 187-188

Released	2002-07-17
Method	SOLUTION NMR
Organisms	Saccharomyces cerevisiae
Macromolecule	Transcription regulatory protein ADR6 (protein)

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1L1F \| pdb_00001l1f	Download File View File

Structure of human glutamate dehydrogenase-apo form

Smith, T.J., Schmidt, T., Fang, J., Wu, J., Siuzdak, G., Stanley, C.A.

(2002) J Mol Biology 318: 765-777

Released	2002-03-06
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Homo sapiens
Macromolecule	Glutamate Dehydrogenase 1 (protein)

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1L8Y \| pdb_00001l8y	Download File View File

Solution structure of HMG box 5 in human upstream binding factor

Yang, W., Xu, Y., Wu, J., Zeng, W., Shi, Y.

(2003) Biochemistry 42: 1930-1938

Released	2002-06-05
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	upstream binding factor 1 (protein)

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1L8Z \| pdb_00001l8z	Download File View File

Solution structure of HMG box 5 in human upstream binding factor

Yang, W., Xu, Y., Wu, J., Zeng, W., Shi, Y.

(2003) Biochemistry 42: 1930-1938

Released	2002-06-05
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	upstream binding factor 1 (protein)

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1LQX \| pdb_00001lqx	Download File View File

Crystal structure of V45E mutant of cytochrome b5

Gan, J.-H., Wu, J., Wang, Z.-Q., Wang, Y.-H., Huang, Z.-X., Xia, Z.-X.

(2002) Acta Crystallogr D Biol Crystallogr 58: 1298-1306

Released	2002-09-04
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Bos taurus
Macromolecule	cytochrome b5 (protein)
Unique Ligands	HEM

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1LR6 \| pdb_00001lr6	Download File View File

Crystal structure of V45Y mutant of cytochrome b5

Gan, J.-H., Wu, J., Wang, Z.-Q., Wang, Y.-H., Huang, Z.-X., Xia, Z.-X.

(2002) Acta Crystallogr D Biol Crystallogr 58: 1298-1306

Released	2002-09-04
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Bos taurus
Macromolecule	cytochrome b5 (protein)
Unique Ligands	HEM

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1M20 \| pdb_00001m20	Download File View File

Crystal Structure of F35Y Mutant of Trypsin-solubilized Fragment of Cytochrome b5

Yao, P., Wu, J., Wang, Y.-H., Sun, B.-Y., Xia, Z.-X., Huang, Z.-X.

(2002) Eur J Biochem 269: 4287-4296

Released	2002-09-11
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Bos taurus
Macromolecule	Cytochrome b5 (protein)
Unique Ligands	HEM

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1M2I \| pdb_00001m2i	Download File View File

Crystal structure of E44A/E56A mutant of cytochrome b5

Wu, J., Wang, Y.-H., Gan, J.-H., Wang, W.-H., Sun, B.-Y., Huang, Z.-X., Xia, Z.-X.

(2002) Chin J Chem 20: 1225-1234

Released	2003-03-18
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Bos taurus
Macromolecule	cytochrome b5 (protein)
Unique Ligands	HEM

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1M2M \| pdb_00001m2m	Download File View File

Crystal structure of E44A/E48A/E56A/D60A mutant of cytochrome b5

Wu, J., Wang, Y.-H., Gan, J.-H., Wang, W.-H., Sun, B.-Y., Huang, Z.-X., Xia, Z.-X.

(2002) Chin J Chem 20: 1225-1234

Released	2003-03-18
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Bos taurus
Macromolecule	cytochrome b5 (protein)
Unique Ligands	HEM

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1M59 \| pdb_00001m59	Download File View File

Crystal Structure of P40V Mutant of Trypsin-solubilized Fragment of Cytochrome b5

Wang, Z.-Q., Wu, J., Wang, Y.-H., Qian, W., Xie, Y., Xia, Z.-X., Huang, Z.-X.

(2002) Chin J Chem 20: 1212-1224

Released	2003-03-18
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Bos taurus
Macromolecule	Cytochrome b5 (protein)
Unique Ligands	HEM

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1ME7 \| pdb_00001me7	Download File View File

Inosine Monophosphate Dehydrogenase (IMPDH) From Tritrichomonas Foetus with RVP and MOA bound

Prosise, G.L., Wu, J., Luecke, H.

(2002) J Biological Chem 277: 50654-50659

Released	2003-01-14
Method	X-RAY DIFFRACTION 2.15 Å
Organisms	Tritrichomonas suis
Macromolecule	INOSINE-5'-MONOPHOSPHATE DEHYDROGENASE (protein)
Unique Ligands	K, MOA, NA, RVP

1 to 25 of 924 Structures

Page 1 of 37

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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

1A8K | pdb_00001a8k

1A8M | pdb_00001a8m

1A94 | pdb_00001a94

1BAI | pdb_00001bai

1CXR | pdb_00001cxr

1DU9 | pdb_00001du9

1EHB | pdb_00001ehb

1ERY | pdb_00001ery

1ES1 | pdb_00001es1

1HYR | pdb_00001hyr

1J3H | pdb_00001j3h

1JFM | pdb_00001jfm

1K99 | pdb_00001k99

1KKX | pdb_00001kkx

1KN5 | pdb_00001kn5

1L1F | pdb_00001l1f

1L8Y | pdb_00001l8y

1L8Z | pdb_00001l8z

1LQX | pdb_00001lqx

1LR6 | pdb_00001lr6

1M20 | pdb_00001m20

1M2I | pdb_00001m2i

1M2M | pdb_00001m2m

1M59 | pdb_00001m59

1ME7 | pdb_00001me7