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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Ikura, M."

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Search Summary

This query matches 80 Structures.

Refinements

Structure Determination Methodology

experimental (80)

Scientific Name of Source Organism

	Homo sapiens (38)
	Mus musculus (17)
	Xenopus laevis (5)
	Bos taurus (3)
	Drosophila melanogaster (3)
	Oryctolagus cuniculus (3)
	Rattus norvegicus (3)
	Caenorhabditis elegans (2)
	Epiactis japonica (2)
	Escherichia coli (2)

More...

Taxonomy

	Eukaryota (73)
	Bacteria (7)
	Eukaryota (eukaryotes) (5)

Experimental Method

	SOLUTION NMR (44)
	X-RAY DIFFRACTION (36)

Polymer Entity Type

Protein (80)

Refinement Resolution (Å)

	1.0 - 1.5 (2)
	1.5 - 2.0 (12)
	2.0 - 2.5 (14)
	2.5 - 3.0 (4)
	3.0 - 3.5 (2)
	3.5 - 4.0 (1)
	> 4.5 (1)

Release Date

	1990 - 1994 (4)
	1995 - 1999 (11)
	2000 - 2004 (9)
	2005 - 2009 (14)
	2010 - 2014 (20)
	2015 - 2019 (12)
	2020 - 2024 (10)

Enzyme Classification Name

	Hydrolases (23)
	Transferases (17)
	Lyases (2)

Membrane Protein Annotation

OPM (1)

Symmetry Type

	Asymmetric (65)
	Cyclic (17)
	Dihedral (4)

SCOP Classification

	All alpha proteins (25)
	Alpha and beta proteins (a+b) (6)
	All beta proteins (11)
	Artifacts (9)
	Alpha and beta proteins (a/b) (5)
	Coiled coil proteins (2)
	Small proteins (2)

AllSelected

1 to 25 of 80 Structures

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1BXD \| pdb_00001bxd	Download File View File

NMR STRUCTURE OF THE HISTIDINE KINASE DOMAIN OF THE E. COLI OSMOSENSOR ENVZ

Tanaka, T., Saha, S.K., Tomomori, C., Ishima, R., Liu, D., Tong, K.I., Park, H., Dutta, R., Qin, L., Swindells, M.B., Yamazaki, T., Ono, A.M., Kainosho, M., Inouye, M., Ikura, M.

(1998) Nature 396: 88-92

Released	1999-10-02
Method	SOLUTION NMR
Organisms	Escherichia coli BL21(DE3)
Macromolecule	PROTEIN (OSMOLARITY SENSOR PROTEIN (ENVZ)) (protein)
Unique Ligands	ANP

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1CKK \| pdb_00001ckk	Download File View File

CALMODULIN/RAT CA2+/CALMODULIN DEPENDENT PROTEIN KINASE FRAGMENT

Osawa, M., Tokumitsu, H., Swindells, M.B., Kurihara, H., Orita, M., Shibanuma, T., Furuya, T., Ikura, M.

(1999) Nat Struct Biol 6: 819-824

Released	1999-09-10
Method	SOLUTION NMR
Organisms	Rattus norvegicus Xenopus laevis
Macromolecule	Calcium/calmodulin-dependent protein kinase kinase 1 (protein) Calmodulin-1 (protein)
Unique Ligands	CA

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1DMO \| pdb_00001dmo	Download File View File

CALMODULIN, NMR, 30 STRUCTURES

Zhang, M., Tanaka, T., Ikura, M.

(1995) Nat Struct Biol 2: 758-767

Released	1996-08-01
Method	SOLUTION NMR
Organisms	Xenopus laevis
Macromolecule	CALMODULIN (protein)

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1EDH \| pdb_00001edh	Download File View File

E-CADHERIN DOMAINS 1 AND 2 IN COMPLEX WITH CALCIUM

Nagar, B., Overduin, M., Ikura, M., Rini, J.M.

(1996) Nature 380: 360-364

Released	1997-01-11
Method	X-RAY DIFFRACTION 2 Å
Organisms	Mus musculus
Macromolecule	E-CADHERIN (protein)
Unique Ligands	CA, HG

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1IKU \| pdb_00001iku	Download File View File

myristoylated recoverin in the calcium-free state, NMR, 22 structures

Tanaka, T., Ames, J.B., Harvey, T.S., Stryer, L., Ikura, M.

(1995) Nature 376: 444-447

Released	1996-07-11
Method	SOLUTION NMR
Organisms	Bos taurus
Macromolecule	RECOVERIN (protein)
Unique Ligands	MYR

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1IQ5 \| pdb_00001iq5	Download File View File

Calmodulin/nematode CA2+/Calmodulin dependent kinase kinase fragment

Kurokawa, H., Osawa, M., Kurihara, H., Katayama, N., Tokumitsu, H., Swindells, M.B., Kainosho, M., Ikura, M.

(2001) J Mol Biology 312: 59-68

Released	2001-09-26
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Caenorhabditis elegans Xenopus laevis
Macromolecule	CA2+/CALMODULIN DEPENDENT KINASE KINASE (protein) CALMODULIN (protein)
Unique Ligands	CA

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1JBA \| pdb_00001jba	Download File View File

UNMYRISTOYLATED GCAP-2 WITH THREE CALCIUM IONS BOUND

Ames, J.B., Dizhoor, A.M., Ikura, M., Palczewski, K., Stryer, L.

(1999) J Biological Chem 274: 19329-19337

Released	1999-12-10
Method	SOLUTION NMR
Organisms	Bos taurus
Macromolecule	PROTEIN (GUANYLATE CYCLASE ACTIVATING PROTEIN 2) (protein)
Unique Ligands	CA

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1JOY \| pdb_00001joy	Download File View File

SOLUTION STRUCTURE OF THE HOMODIMERIC DOMAIN OF ENVZ FROM ESCHERICHIA COLI BY MULTI-DIMENSIONAL NMR.

Tomomori, C., Tanaka, T., Dutta, R., Park, H., Saha, S.K., Zhu, Y., Ishima, R., Liu, D., Tong, K.I., Kurokawa, H., Qian, H., Inouye, M., Ikura, M.

(1999) Nat Struct Biol 6: 729-734

Released	2000-01-12
Method	SOLUTION NMR
Organisms	Escherichia coli
Macromolecule	PROTEIN (ENVZ_ECOLI) (protein)

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1JSA \| pdb_00001jsa	Download File View File

MYRISTOYLATED RECOVERIN WITH TWO CALCIUMS BOUND, NMR, 24 STRUCTURES

Ames, J.B., Ishima, R., Tanaka, T., Gordon, J.I., Stryer, L., Ikura, M.

(1997) Nature 389: 198-202

Released	1997-10-15
Method	SOLUTION NMR
Organisms	Bos taurus
Macromolecule	RECOVERIN (protein)
Unique Ligands	CA, MYR

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1MUX \| pdb_00001mux	Download File View File

SOLUTION NMR STRUCTURE OF CALMODULIN/W-7 COMPLEX: THE BASIS OF DIVERSITY IN MOLECULAR RECOGNITION, 30 STRUCTURES

Osawa, M., Swindells, M.B., Tanikawa, J., Tanaka, T., Mase, T., Furuya, T., Ikura, M.

(1998) J Mol Biology 276: 165-176

Released	1998-10-14
Method	SOLUTION NMR
Organisms	Xenopus laevis
Macromolecule	CALMODULIN (protein)
Unique Ligands	CA, WW7

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1MYW \| pdb_00001myw	Download File View File

CRYSTAL STRUCTURE OF A YELLOW FLUORESCENT PROTEIN WITH IMPROVED MATURATION AND REDUCED ENVIRONMENTAL SENSITIVITY

Rekas, A., Alattia, J.R., Nagai, T., Miyawaki, A., Ikura, M.

(2002) J Biological Chem 277: 50573-50578

Released	2003-01-14
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Aequorea victoria
Macromolecule	Green fluorescent protein (protein)

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1N4K \| pdb_00001n4k	Download File View File

Crystal structure of the inositol 1,4,5-trisphosphate receptor binding core in complex with IP3

Bosanac, I., Alattia, J.R., Mal, T.K., Chan, J., Talarico, S., Tong, F.K., Tong, K.I., Yoshikawa, F., Furuichi, T., Iwai, M., Michikawa, T., Mikoshiba, K., Ikura, M.

(2002) Nature 420: 696-700

Released	2002-12-25
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Mus musculus
Macromolecule	Inositol 1,4,5-trisphosphate receptor type 1 (protein)
Unique Ligands	I3P

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1NWD \| pdb_00001nwd	Download File View File

Solution Structure of Ca2+/Calmodulin bound to the C-terminal Domain of Petunia Glutamate Decarboxylase

Yap, K.L., Yuan, T., Mal, T.K., Vogel, H.J., Ikura, M.

(2003) J Mol Biology 328: 193-204

Released	2003-04-08
Method	SOLUTION NMR
Organisms	Petunia x hybrida Xenopus laevis
Macromolecule	Calmodulin (protein) Glutamate decarboxylase (protein)
Unique Ligands	CA

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1PA7 \| pdb_00001pa7	Download File View File

Crystal structure of amino-terminal microtubule binding domain of EB1

Hayashi, I., Ikura, M.

(2003) J Biological Chem 278: 36430-36434

Released	2003-10-21
Method	X-RAY DIFFRACTION 1.45 Å
Organisms	Homo sapiens
Macromolecule	Microtubule-associated protein RP/EB family member 1 (protein)
Unique Ligands	SO4

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1PRR \| pdb_00001prr	Download File View File

NMR-DERIVED THREE-DIMENSIONAL SOLUTION STRUCTURE OF PROTEIN S COMPLEXED WITH CALCIUM

Bagby, S., Harvey, T.S., Eagle, S.G., Inouye, S., Ikura, M.

(1994) Structure 2: 107-122

Released	1994-08-31
Method	SOLUTION NMR
Organisms	Myxococcus xanthus
Macromolecule	DEVELOPMENT-SPECIFIC PROTEIN S (protein)
Unique Ligands	CA

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1PRS \| pdb_00001prs	Download File View File

NMR-DERIVED THREE-DIMENSIONAL SOLUTION STRUCTURE OF PROTEIN S COMPLEXED WITH CALCIUM

Bagby, S., Harvey, T.S., Eagle, S.G., Inouye, S., Ikura, M.

(1994) Structure 2: 107-122

Released	1994-08-31
Method	SOLUTION NMR
Organisms	Myxococcus xanthus
Macromolecule	DEVELOPMENT-SPECIFIC PROTEIN S (protein)
Unique Ligands	CA

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1RLY \| pdb_00001rly	Download File View File

RDC-derived models of the zinc ribbon domain of human general transcription TFIIB (zinc bound structures)

Ghosh, M., Ikura, M.

(2004) Biochem J 378: 317-324

Released	2004-05-25
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Transcription initiation factor IIB (protein)
Unique Ligands	ZN

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1RO4 \| pdb_00001ro4	Download File View File

RDC-derived models of the zinc ribbon domain of human general transcription factor TFIIB (zinc free structures)

Ghosh, M., Ikura, M.

(2004) Biochem J 378: 317-324

Released	2004-05-25
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Transcription initiation factor IIB (protein)

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1SUH \| pdb_00001suh	Download File View File

AMINO-TERMINAL DOMAIN OF EPITHELIAL CADHERIN IN THE CALCIUM BOUND STATE, NMR, 20 STRUCTURES

Overduin, M., Tong, K.I., Kay, C.M., Ikura, M.

(1996) J Biomol NMR 7: 173-189

Released	1996-07-11
Method	SOLUTION NMR
Organisms	Mus musculus
Macromolecule	EPITHELIAL CADHERIN (protein)

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1TBA \| pdb_00001tba	Download File View File

SOLUTION STRUCTURE OF A TBP-TAFII230 COMPLEX: PROTEIN MIMICRY OF THE MINOR GROOVE SURFACE OF THE TATA BOX UNWOUND BY TBP, NMR, 25 STRUCTURES

Liu, D., Ishima, R., Tong, K.I., Bagby, S., Kokubo, T., Muhandiram, D.R., Kay, L.E., Nakatani, Y., Ikura, M.

(1998) Cell 94: 573-583

Released	1999-08-16
Method	SOLUTION NMR
Organisms	Drosophila melanogaster Saccharomyces cerevisiae
Macromolecule	TRANSCRIPTION INITIATION FACTOR IID 230K CHAIN (protein) TRANSCRIPTION INITIATION FACTOR TFIID (protein)

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1TFB \| pdb_00001tfb	Download File View File

NMR STUDIES OF HUMAN GENERAL TRANSCRIPTION FACTOR TFIIB: DYNAMICS AND INTERACTION WITH VP16 ACTIVATION DOMAIN, 20 STRUCTURES

Bagby, S., Ikura, M.

(1998) Biochemistry 37: 7941-7951

Released	1997-03-12
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	TFIIB (protein)

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1TXQ \| pdb_00001txq	Download File View File

Crystal structure of the EB1 C-terminal domain complexed with the CAP-Gly domain of p150Glued

Hayashi, I., Ikura, M.

(2005) Mol Cell 19: 449-460

Released	2005-09-13
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Homo sapiens
Macromolecule	Dynactin 1 (protein) Microtubule-associated protein RP/EB family member 1 (protein)

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1UEG \| pdb_00001ueg	Download File View File

Crystal structure of amino-terminal microtubule binding domain of EB1

Hayashi, I., Ikura, M.

(2003) J Biological Chem 278: 36430-36434

Released	2003-10-21
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	Microtubule-associated protein RP/EB family member 1 (protein)
Unique Ligands	SO4

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1XZZ \| pdb_00001xzz	Download File View File

Crystal structure of the ligand binding suppressor domain of type 1 inositol 1,4,5-trisphosphate receptor

Bosanac, I., Yamazaki, H., Matsu-ura, T., Michikawa, T., Mikoshiba, K., Ikura, M.

(2005) Mol Cell 17: 193-203

Released	2005-01-25
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Mus musculus
Macromolecule	Inositol 1,4,5-trisphosphate receptor type 1 (protein)
Unique Ligands	GOL

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2BBM \| pdb_00002bbm	Download File View File

SOLUTION STRUCTURE OF A CALMODULIN-TARGET PEPTIDE COMPLEX BY MULTIDIMENSIONAL NMR

Clore, G.M., Bax, A., Ikura, M., Gronenborn, A.M.

(1992) Science 256: 632-638

Released	1994-01-31
Method	SOLUTION NMR
Organisms	Drosophila melanogaster Oryctolagus cuniculus
Macromolecule	CALMODULIN (protein) MYOSIN LIGHT CHAIN KINASE (protein)
Unique Ligands	CA

1 to 25 of 80 Structures

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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

1BXD | pdb_00001bxd

1CKK | pdb_00001ckk

1DMO | pdb_00001dmo

1EDH | pdb_00001edh

1IKU | pdb_00001iku

1IQ5 | pdb_00001iq5

1JBA | pdb_00001jba

1JOY | pdb_00001joy

1JSA | pdb_00001jsa

1MUX | pdb_00001mux

1MYW | pdb_00001myw

1N4K | pdb_00001n4k

1NWD | pdb_00001nwd

1PA7 | pdb_00001pa7

1PRR | pdb_00001prr

1PRS | pdb_00001prs

1RLY | pdb_00001rly

1RO4 | pdb_00001ro4

1SUH | pdb_00001suh

1TBA | pdb_00001tba

1TFB | pdb_00001tfb

1TXQ | pdb_00001txq

1UEG | pdb_00001ueg

1XZZ | pdb_00001xzz

2BBM | pdb_00002bbm