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233,249 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Kikkawa, M."

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Search Summary

This query matches 52 Structures.

Refinements

Structure Determination Methodology

experimental (52)

Scientific Name of Source Organism

	Mus musculus (18)
	Rattus norvegicus (18)
	Homo sapiens (9)
	Saccharomyces cerevisiae S288C (6)
	Sus scrofa (6)
	Bos taurus (5)
	Drosophila melanogaster (5)
	Saccharomyces cerevisiae (3)
	Bacillus amyloliquefaciens (1)
	Oryctolagus cuniculus (1)

More...

Taxonomy

	Eukaryota (50)
	Bacteria (2)
	other sequences (1)

Experimental Method

	ELECTRON MICROSCOPY (43)
	X-RAY DIFFRACTION (7)
	SOLUTION NMR (2)

Polymer Entity Type

Protein (52)

Refinement Resolution (Å)

	1.5 - 2.0 (3)
	2.0 - 2.5 (4)
	2.5 - 3.0 (3)
	3.0 - 3.5 (11)
	3.5 - 4.0 (19)
	4.0 - 4.5 (1)
	> 4.5 (9)

Release Date

	2000 - 2004 (7)
	2005 - 2009 (4)
	2015 - 2019 (6)
	2020 - 2024 (35)

Enzyme Classification Name

	Hydrolases (11)
	Isomerases (8)

Membrane Protein Annotation

	PDBTM (8)
	OPM (9)
	mpstruc (11)
	MemProtMD (3)

Symmetry Type

	Asymmetric (34)
	Cyclic (15)
	Dihedral (2)
	Icosahedral (1)

SCOP Classification

	Alpha and beta proteins (a/b) (9)
	Alpha and beta proteins (a+b) (3)
	Artifacts (3)
	Low resolution protein structures (1)
	All beta proteins (1)

AllSelected

1 to 25 of 52 Structures

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1I5S \| pdb_00001i5s	Download File View File

CRYSTAL STRUCTURE OF THE KIF1A MOTOR DOMAIN COMPLEXED WITH MG-ADP

Kikkawa, M., Sablin, E.P., Okada, Y., Yajima, H., Fletterick, R.J., Hirokawa, N.

(2001) Nature 411: 439-445

Released	2001-05-30
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Mus musculus
Macromolecule	KINESIN-LIKE PROTEIN KIF1A (protein)
Unique Ligands	ADP, MG

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1I6I \| pdb_00001i6i	Download File View File

CRYSTAL STRUCTURE OF THE KIF1A MOTOR DOMAIN COMPLEXED WITH MG-AMPPCP

Kikkawa, M., Sablin, E.P., Okada, Y., Yajima, H., Fletterick, R.J., Hirokawa, N.

(2001) Nature 411: 439-445

Released	2001-05-30
Method	X-RAY DIFFRACTION 2 Å
Organisms	Mus musculus
Macromolecule	KINESIN-LIKE PROTEIN KIF1A (protein)
Unique Ligands	ACP, MG, TRS

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1IA0 \| pdb_00001ia0	Download File View File

KIF1A HEAD-MICROTUBULE COMPLEX STRUCTURE IN ATP-FORM

Kikkawa, M., Sablin, E.P., Okada, Y., Yajima, H., Fletterick, R.J., Hirokawa, N.

(2001) Nature 411: 439-445

Released	2002-03-22
Method	ELECTRON MICROSCOPY 15 Å
Organisms	Mus musculus Sus scrofa
Macromolecule	KINESIN-LIKE PROTEIN KIF1A (protein) TUBULIN ALPHA CHAIN (protein) TUBULIN BETA CHAIN (protein)
Unique Ligands	ACP, GDP, GTP, MG, TXL

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1V5I \| pdb_00001v5i	Download File View File

Crystal structure of serine protease inhibitor POIA1 in complex with subtilisin BPN'

Lee, W.C., Kikkawa, M., Kojima, S., Miura, K., Tanokura, M.

To be published

Released	2005-03-08
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Bacillus amyloliquefaciens Pleurotus ostreatus
Macromolecule	IA-1=serine proteinase inhibitor (protein) Subtilisin BPN' (protein)
Unique Ligands	CA, GOL, SO4

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1VFV \| pdb_00001vfv	Download File View File

Crystal Structure of the Kif1A Motor Domain Complexed With Mg-AMPPNP

Nitta, R., Kikkawa, M., Okada, Y., Hirokawa, N.

(2004) Science 305: 678-683

Released	2004-08-10
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Mus musculus
Macromolecule	PROTEIN (Fusion protein consisting of Kinesin-like protein KIF1A, Kinesin heavy chain isoform 5C and A HIS TAG (protein)
Unique Ligands	ANP, MG

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1VFW \| pdb_00001vfw	Download File View File

Crystal Structure of the Kif1A Motor Domain Complexed With Mg-AMPPNP

Nitta, R., Kikkawa, M., Okada, Y., Hirokawa, N.

(2004) Science 305: 678-683

Released	2004-08-10
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Mus musculus
Macromolecule	PROTEIN (Fusion protein consisting of Kinesin-like protein KIF1A, Kinesin heavy chain isoform 5C and A HIS TAG (protein)
Unique Ligands	ANP, MG

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1VFX \| pdb_00001vfx	Download File View File

Crystal Structure of the Kif1A Motor Domain Complexed With ADP-Mg-AlFx

Nitta, R., Kikkawa, M., Okada, Y., Hirokawa, N.

(2004) Science 305: 678-683

Released	2004-08-10
Method	X-RAY DIFFRACTION 2.55 Å
Organisms	Mus musculus
Macromolecule	PROTEIN (Fusion protein consisting of Kinesin-like protein KIF1A, Kinesin heavy chain isoform 5C and A HIS TAG (protein)
Unique Ligands	ADP, AF3, MG, TRS

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1VFZ \| pdb_00001vfz	Download File View File

Crystal Structure of the Kif1A Motor Domain Complexed With ADP-Mg-VO4

Nitta, R., Kikkawa, M., Okada, Y., Hirokawa, N.

(2004) Science 305: 678-683

Released	2004-08-10
Method	X-RAY DIFFRACTION 2.24 Å
Organisms	Mus musculus
Macromolecule	PROTEIN (Fusion protein consisting of Kinesin-like protein KIF1A, Kinesin heavy chain isoform 5C and A HIS TAG (protein)
Unique Ligands	ADP, MG, VO4

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2HXF \| pdb_00002hxf	Download File View File

KIF1A head-microtubule complex structure in amppnp-form

Kikkawa, M., Hirokawa, N.

(2006) EMBO J 25: 4187-4194

Released	2006-10-10
Method	ELECTRON MICROSCOPY 10 Å
Organisms	Mus musculus Sus scrofa
Macromolecule	Kinesin-like protein KIF1A (protein) Tubulin alpha chain (protein) Tubulin beta chain (protein)
Unique Ligands	ANP, GDP, GTP, MG, TA1

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2HXH \| pdb_00002hxh	Download File View File

KIF1A head-microtubule complex structure in adp-form

Kikkawa, M., Hirokawa, N.

(2006) EMBO J 25: 4187-4194

Released	2006-10-10
Method	ELECTRON MICROSCOPY 11 Å
Organisms	Mus musculus Sus scrofa
Macromolecule	Kinesin-like protein KIF1A (protein) Tubulin alpha chain (protein) Tubulin beta chain (protein)
Unique Ligands	ADP, GDP, GTP, MG, TA1

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2WBE \| pdb_00002wbe	Download File View File

Kinesin-5-Tubulin Complex with AMPPNP

Bodey, A.J., Kikkawa, M., Moores, C.A.

(2009) J Mol Biology 388: 218

Released	2009-03-24
Method	ELECTRON MICROSCOPY 9.4 Å
Organisms	Bos taurus Drosophila melanogaster
Macromolecule	BIPOLAR KINESIN KRP-130 (protein) TUBULIN ALPHA-1D CHAIN (protein) TUBULIN BETA-2B CHAIN (protein)
Unique Ligands	ANP, GDP, GTP, MG, TA1

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5GSY \| pdb_00005gsy	Download File View File

Kinesin-8 motor, KIF19A, in the nucleotide-free state complexed with GDP-taxol microtubule

Morikawa, M., Nitta, R., Yajima, H., Shigematsu, H., Kikkawa, M., Hirokawa, N.

(2016) Elife 5:

Released	2016-09-28
Method	ELECTRON MICROSCOPY 7 Å
Organisms	Mus musculus
Macromolecule	Kinesin-like protein KIF19 (protein)

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5HNW \| pdb_00005hnw	Download File View File

Structural basis of backwards motion in kinesin-14: minus-end directed nKn664 in the AMPPNP state

Shigematsu, H., Yokoyama, T., Kikkawa, M., Shirouzu, M., Nitta, R.

(2016) Structure 24: 1322-1334

Released	2016-08-10
Method	ELECTRON MICROSCOPY 6.6 Å
Organisms	Bos taurus Drosophila melanogaster Rattus norvegicus
Macromolecule	Protein claret segregational,KINESIN HEAVY CHAIN ISOFORM 5C (protein) Tubulin alpha-1B chain (protein) Tubulin beta-2B chain (protein)
Unique Ligands	ANP, GDP, GTP, MG, TA1

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5HNX \| pdb_00005hnx	Download File View File

Structural basis of backwards motion in kinesin-14: minus-end directed nKn664 in the nucleotide-free state

Shigematsu, H., Yokoyama, T., Kikkawa, M., Shirouzu, M., Nitta, R.

(2016) Structure 24: 1322-1334

Released	2016-08-10
Method	ELECTRON MICROSCOPY 6.6 Å
Organisms	Bos taurus Drosophila melanogaster Rattus norvegicus
Macromolecule	Protein claret segregational,kinesin-1/kinesin-14,Protein claret segregational (protein) Tubulin alpha-1B chain (protein) Tubulin beta-2B chain (protein)
Unique Ligands	GDP, GTP, MG, TA1

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5HNY \| pdb_00005hny	Download File View File

Structural basis of backwards motion in kinesin-14: plus-end directed nKn669 in the AMPPNP state

Shigematsu, H., Yokoyama, T., Kikkawa, M., Shirouzu, M., Nitta, R.

(2016) Structure 24: 1322-1334

Released	2016-08-10
Method	ELECTRON MICROSCOPY 6.3 Å
Organisms	Bos taurus Drosophila melanogaster Rattus norvegicus
Macromolecule	Protein claret segregational, Kinesin-1/Kinesin-14, Protein claret segregational (protein) Tubulin alpha-1B chain (protein) Tubulin beta-2B chain (protein)
Unique Ligands	ANP, GDP, GTP, MG, TA1

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5HNZ \| pdb_00005hnz	Download File View File

Structural basis of backwards motion in kinesin-14: plus-end directed nKn669 in the nucleotide-free state

Shigematsu, H., Yokoyama, T., Kikkawa, M., Shirouzu, M., Nitta, R.

(2016) Structure 24: 1322-1334

Released	2016-08-10
Method	ELECTRON MICROSCOPY 5.8 Å
Organisms	Bos taurus Drosophila melanogaster Rattus norvegicus
Macromolecule	Protein claret segregational,Protein claret segregational,Plus-end directed kinesin-1/kinesin-14,Protein claret segregational,Protein claret segregational (protein) Tubulin alpha-1B chain (protein) Tubulin beta-2B chain (protein)
Unique Ligands	GDP, GTP, MG, TA1

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6JNF \| pdb_00006jnf	Download File View File

Cryo-EM structure of the translocator of the outer mitochondrial membrane

Araiso, Y., Tsutsumi, A., Suzuki, J., Yunoki, K., Kawano, S., Kikkawa, M., Endo, T.

(2019) Nature 575: 395-401

Released	2019-10-16
Method	ELECTRON MICROSCOPY 3.81 Å
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	Mitochondrial import receptor subunit TOM22 (protein) Mitochondrial import receptor subunit TOM40 (protein) Mitochondrial import receptor subunit TOM5 (protein) Mitochondrial import receptor subunit TOM6 (protein) Mitochondrial import receptor subunit TOM7 (protein)
Unique Ligands	46E

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6KIO \| pdb_00006kio	Download File View File

Complex of yeast cytoplasmic dynein MTBD-High and MT without DTT

Komori, Y., Nishida, N., Shimada, I., Kikkawa, M.

(2020) Nat Commun 11: 1038-1038

Released	2020-03-04
Method	ELECTRON MICROSCOPY 3.94 Å
Organisms	Saccharomyces cerevisiae S288C Sus scrofa
Macromolecule	Dynein heavy chain, cytoplasmic (protein) Tubulin alpha-1A chain (protein) Tubulin beta chain (protein)

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6KIQ \| pdb_00006kiq	Download File View File

Complex of yeast cytoplasmic dynein MTBD-High and MT with DTT

Komori, Y., Nishida, N., Shimada, I., Kikkawa, M.

(2020) Nat Commun 11: 1038-1038

Released	2020-03-04
Method	ELECTRON MICROSCOPY 3.62 Å
Organisms	Saccharomyces cerevisiae S288C Sus scrofa
Macromolecule	Alpha tubulin (protein) Dynein heavy chain, cytoplasmic (protein) Tubulin beta chain (protein)

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6KJN \| pdb_00006kjn	Download File View File

The microtubule-binding domains of yeast cytoplasmic dynein in the high affinity state

Nishida, N., Komori, Y., Takarada, O., Watanabe, A., Tamura, S., Kubo, S., Shimada, I., Kikkawa, M.

(2020) Nat Commun 11: 1038-1038

Released	2020-03-18
Method	SOLUTION NMR
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	Dynein heavy chain, cytoplasmic (protein)

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6KJO \| pdb_00006kjo	Download File View File

The microtubule-binding domains of yeast cytoplasmic dynein in the low affinity state

Nishida, N., Komori, Y., Takarada, O., Watanabe, A., Tamura, S., Kubo, S., Shimada, I., Kikkawa, M.

(2020) Nat Commun 11: 1038-1038

Released	2020-03-18
Method	SOLUTION NMR
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	Dynein heavy chain, cytoplasmic (protein)

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7BTW \| pdb_00007btw	Download File View File

The mitochondrial SAM complex from S.cere

Takeda, H., Tsutsumi, A., Nishizawa, T., Nureki, O., Kikkawa, M., Endo, T.

(2021) Nature 590: 163-169

Released	2021-01-20
Method	ELECTRON MICROSCOPY 2.9 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Mitochondrial outer membrane beta-barrel protein (protein) SAM37 isoform 1 (protein) Sorting assembly machinery 35 kDa subunit (protein)

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7BTX \| pdb_00007btx	Download File View File

The mitochondrial SAM-Mdm10 supercomplex in GDN micelle from S.cere

Takeda, H., Tsutsumi, A., Nishizawa, T., Nureki, O., Kikkawa, M., Endo, T.

(2021) Nature 590: 163-169

Released	2021-01-20
Method	ELECTRON MICROSCOPY 2.8 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	MDM10 isoform 1 (protein) Mitochondrial outer membrane beta-barrel protein (protein) Sorting assembly machinery 35 kDa subunit (protein) Sorting assembly machinery 37 kDa subunit (protein)

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7BTY \| pdb_00007bty	Download File View File

The mitochondrial SAM-Mdm10 supercomplex in Nanodisc from S.cere

Takeda, H., Tsutsumi, A., Nishizawa, T., Nureki, O., Kikkawa, M., Endo, T.

(2021) Nature 590: 163-169

Released	2021-01-20
Method	ELECTRON MICROSCOPY 3.2 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	MDM10 isoform 1 (protein) Mitochondrial outer membrane beta-barrel protein (protein) Sorting assembly machinery 35 kDa subunit (protein) Sorting assembly machinery 37 kDa subunit (protein)

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7D0I \| pdb_00007d0i	Download File View File

Cryo-EM structure of Schizosaccharomyces pombe Atg9

Matoba, K., Tsutsumi, A., Kikkawa, M., Noda, N.N.

(2020) Nat Struct Mol Biol 27: 1185-1193

Released	2020-10-28
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Schizosaccharomyces pombe 972h-
Macromolecule	Autophagy-related protein 9 (protein)
Unique Ligands	LMN

1 to 25 of 52 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

1I5S | pdb_00001i5s

1I6I | pdb_00001i6i

1IA0 | pdb_00001ia0

1V5I | pdb_00001v5i

1VFV | pdb_00001vfv

1VFW | pdb_00001vfw

1VFX | pdb_00001vfx

1VFZ | pdb_00001vfz

2HXF | pdb_00002hxf

2HXH | pdb_00002hxh

2WBE | pdb_00002wbe

5GSY | pdb_00005gsy

5HNW | pdb_00005hnw

5HNX | pdb_00005hnx

5HNY | pdb_00005hny

5HNZ | pdb_00005hnz

6JNF | pdb_00006jnf

6KIO | pdb_00006kio

6KIQ | pdb_00006kiq

6KJN | pdb_00006kjn

6KJO | pdb_00006kjo

7BTW | pdb_00007btw

7BTX | pdb_00007btx

7BTY | pdb_00007bty

7D0I | pdb_00007d0i