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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Gene Name = "HIST1H4K"

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Search Summary

This query matches 322 Structures.

Refinements

Structure Determination Methodology

experimental (322)

Scientific Name of Source Organism

	Homo sapiens (320)
	synthetic construct (128)
	Mus musculus (32)
	Komagataella phaffii GS115 (14)
	Escherichia coli (10)
	other sequences (9)
	Komagataella phaffii (8)
	Komagataella phaffii CBS 7435 (7)
	Xenopus laevis (6)
	Thermochaetoides thermophila (5)

More...

Taxonomy

	Eukaryota (322)
	other sequences (137)
	Bacteria (17)
	Duplodnaviria (3)
	Riboviria (3)
	unclassified sequences (2)
	Adnaviria (1)

Experimental Method

	ELECTRON MICROSCOPY (230)
	X-RAY DIFFRACTION (92)

Polymer Entity Type

	Protein (322)
	DNA (300)
	RNA (27)
	NA-hybrid (1)

Refinement Resolution (Å)

	1.5 - 2.0 (8)
	2.0 - 2.5 (27)
	2.5 - 3.0 (66)
	3.0 - 3.5 (83)
	3.5 - 4.0 (53)
	4.0 - 4.5 (38)
	> 4.5 (47)

Release Date

	2010 - 2014 (12)
	2015 - 2019 (89)
	2020 - 2024 (201)
	2025 - 2029 (20)

Enzyme Classification Name

	Transferases (88)
	Hydrolases (26)
	Lyases (8)
	Oxidoreductases (1)

Symmetry Type

	Asymmetric (201)
	Cyclic (126)

SCOP Classification

	All alpha proteins (55)
	All beta proteins (7)
	Artifacts (3)
	Alpha and beta proteins (a+b) (1)

AllSelected

1 to 25 of 322 Structures

Page 1 of 13

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Explore in 3D

3W96 \| pdb_00003w96	Download File View File

Crystal Structure of Human Nucleosome Core Particle lacking H2A N-terminal region

Iwasaki, W., Miya, Y., Horikoshi, N., Osakabe, A., Tachiwana, H., Shibata, T., Kagawa, W., Kurumizaka, H.

(2013) FEBS Open Bio 3: 363-369

Released	2013-08-28
Method	X-RAY DIFFRACTION 3 Å
Organisms	Homo sapiens
Macromolecule	Histone H2A type 1-B/E (protein) Histone H2B type 1-J (protein) Histone H3.1 (protein) Histone H4 (protein) 146-mer DNA (nucleic acid)
Unique Ligands	CL, MN

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3W97 \| pdb_00003w97	Download File View File

Crystal Structure of Human Nucleosome Core Particle lacking H2B N-terminal region

Iwasaki, W., Miya, Y., Horikoshi, N., Osakabe, A., Tachiwana, H., Shibata, T., Kagawa, W., Kurumizaka, H.

(2013) FEBS Open Bio 3: 363-369

Released	2013-08-28
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Homo sapiens
Macromolecule	Histone H2A type 1-B/E (protein) Histone H2B type 1-J (protein) Histone H3.1 (protein) Histone H4 (protein) 146-mer DNA (nucleic acid)
Unique Ligands	MN

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3W98 \| pdb_00003w98	Download File View File

Crystal Structure of Human Nucleosome Core Particle lacking H3.1 N-terminal region

Iwasaki, W., Miya, Y., Horikoshi, N., Osakabe, A., Tachiwana, H., Shibata, T., Kagawa, W., Kurumizaka, H.

(2013) FEBS Open Bio 3: 363-369

Released	2013-08-28
Method	X-RAY DIFFRACTION 3.42 Å
Organisms	Homo sapiens
Macromolecule	Histone H2A type 1-B/E (protein) Histone H2B type 1-J (protein) Histone H3.1 (protein) Histone H4 (protein) 146-mer DNA (nucleic acid)
Unique Ligands	MN

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3W99 \| pdb_00003w99	Download File View File

Crystal Structure of Human Nucleosome Core Particle lacking H4 N-terminal region

Iwasaki, W., Miya, Y., Horikoshi, N., Osakabe, A., Tachiwana, H., Shibata, T., Kagawa, W., Kurumizaka, H.

(2013) FEBS Open Bio 3: 363-369

Released	2013-08-28
Method	X-RAY DIFFRACTION 3 Å
Organisms	Homo sapiens
Macromolecule	Histone H2A type 1-B/E (protein) Histone H2B type 1-J (protein) Histone H3.1 (protein) Histone H4 (protein) 146-mer DNA (nucleic acid)
Unique Ligands	MN

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3WTP \| pdb_00003wtp	Download File View File

Crystal Structure of the heterotypic nucleosome containing human CENP-A and H3.3

Arimura, Y., Shirayama, K., Horikoshi, N., Fujita, R., Kagawa, W., Fukagawa, T., Almouzni, G., Kurumizaka, H.

(2014) Sci Rep 4: 7115-7115

Released	2014-12-03
Method	X-RAY DIFFRACTION 2.67 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 1

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3X1S \| pdb_00003x1s	Download File View File

Crystal structure of the nucleosome core particle

Sivaraman, P., Kumarevel, T.S.

(2015) Biochem Biophys Res Commun 464: 929-935

Released	2015-09-23
Method	X-RAY DIFFRACTION 2.805 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	Histone H2A type 1-B/E (protein) Histone H2B type 1-B (protein) Histone H3.1 (protein) Histone H4 (protein) DNA (146-MER) (nucleic acid)
Unique Ligands	CL, MN

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4H9N \| pdb_00004h9n	Download File View File

Complex structure 1 of DAXX/H3.3(sub5)/H4

Elsasser, S.J., Huang, H., Lewis, P.W., Chin, J.W., Allis, D.C., Patel, D.J.

To be published

Released	2012-10-10
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Homo sapiens
Macromolecule	Death domain-associated protein 6 (protein) Histone H3.3 (protein) Histone H4 (protein)
Unique Ligands	PO4

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4H9O \| pdb_00004h9o	Download File View File

Complex structure 2 of DAXX/H3.3(sub5,G90M)/H4

Elsasser, S.J., Huang, H., Lewis, P.W., Chin, J.W., Allis, D.C., Patel, D.J.

To be published

Released	2012-10-10
Method	X-RAY DIFFRACTION 2.053 Å
Organisms	Homo sapiens
Macromolecule	Death domain-associated protein 6 (protein) Histone H3.3 (protein) Histone H4 (protein)
Unique Ligands	PO4

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4H9P \| pdb_00004h9p	Download File View File

Complex structure 3 of DAXX/H3.3(sub5,G90A)/H4

Elsasser, S.J., Huang, H., Lewis, P.W., Chin, J.W., Allis, D.C., Patel, D.J.

To be published

Released	2012-10-17
Method	X-RAY DIFFRACTION 2.198 Å
Organisms	Homo sapiens
Macromolecule	Death domain-associated protein 6 (protein) Histone H3.3 (protein) Histone H4 (protein)
Unique Ligands	PO4

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4H9Q \| pdb_00004h9q	Download File View File

Complex structure 4 of DAXX(E225A)/H3.3(sub5)/H4

Elsasser, S.J., Huang, H., Lewis, P.W., Chin, J.W., Allis, D.C., Patel, D.J.

To be published

Released	2012-10-17
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Homo sapiens
Macromolecule	Death domain-associated protein 6 (protein) Histone H3.3 (protein) Histone H4 (protein)
Unique Ligands	PO4

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4H9R \| pdb_00004h9r	Download File View File

Complex structure 5 of DAXX(E225A)/H3.3(sub5,G90A)/H4

Elsasser, S.J., Huang, H., Lewis, P.W., Chin, J.W., Allis, D.C., Patel, D.J.

To be published

Released	2012-10-17
Method	X-RAY DIFFRACTION 2.197 Å
Organisms	Homo sapiens
Macromolecule	Death domain-associated protein 6 (protein) Histone H3.3 (protein) Histone H4 (protein)
Unique Ligands	PO4

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4H9S \| pdb_00004h9s	Download File View File

Complex structure 6 of DAXX/H3.3(sub7)/H4

Elsasser, S.J., Huang, H., Lewis, P.W., Chin, J.W., Allis, D.C., Patel, D.J.

To be published

Released	2012-10-17
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Homo sapiens
Macromolecule	Death domain-associated protein 6 (protein) Histone H3.3 (protein) Histone H4 (protein)
Unique Ligands	PO4

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4HGA \| pdb_00004hga	Download File View File

Structure of the variant histone H3.3-H4 heterodimer in complex with its chaperone DAXX

Liu, C.P., Xiong, C.Y., Wang, M.Z., Yu, Z.L., Yang, N., Chen, P., Zhang, Z.G., Li, G.H., Xu, R.M.

(2012) Nat Struct Mol Biol 19: 1287-1292

Released	2012-11-07
Method	X-RAY DIFFRACTION 2.799 Å
Organisms	Homo sapiens
Macromolecule	Death domain-associated protein 6 (protein) Histone H3.3 (protein) Histone H4 (protein)
Unique Ligands	PC4

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4Z5T \| pdb_00004z5t	Download File View File

The nucleosome containing human H3.5

Urahama, T., Harada, A., Maehara, K., Horikoshi, N., Sato, K., Sato, Y., Shiraishi, K., Sugino, N., Osakabe, A., Tachiwana, H., Kagawa, W., Kimura, H., Ohkawa, Y., Kurumizaka, H.

(2016) Epigenetics Chromatin 9: 2-2

Released	2016-02-10
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Homo sapiens
Macromolecule	Histone H2A type 1-B/E (protein) Histone H2B type 1-J (protein) Histone H3.3C (protein) Histone H4 (protein) DNA (146-MER) (nucleic acid)

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5AV5 \| pdb_00005av5	Download File View File

human nucleosome core particle

Wakamori, M., Fujii, Y., Umehara, T., Yokoyama, S.

(2015) Sci Rep 5: 17204-17204

Released	2015-12-23
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 2
Unique Ligands	MN

Explore in 3D

5AV6 \| pdb_00005av6	Download File View File

human nucleosome core particle

Wakamori, M., Fujii, Y., Umehara, T., Yokoyama, S.

(2015) Sci Rep 5: 17204-17204

Released	2015-12-23
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 2
Unique Ligands	MN

Explore in 3D

5AV8 \| pdb_00005av8	Download File View File

human nucleosome core particle

Wakamori, M., Fujii, Y., Umehara, T., Yokoyama, S.

(2015) Sci Rep 5: 17204-17204

Released	2015-12-23
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 2
Unique Ligands	MN

Explore in 3D

5AV9 \| pdb_00005av9	Download File View File

human nucleosome core particle

Wakamori, M., Fujii, Y., Umehara, T., Yokoyama, S.

(2015) Sci Rep 5: 17204-17204

Released	2015-12-23
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 2
Unique Ligands	MN

Explore in 3D

5AVB \| pdb_00005avb	Download File View File

human nucleosome core particle

Wakamori, M., Fujii, Y., Umehara, T., Yokoyama, S.

(2015) Sci Rep 5: 17204-17204

Released	2015-12-23
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 2
Unique Ligands	MN

Explore in 3D

5AVC \| pdb_00005avc	Download File View File

human nucleosome core particle

Wakamori, M., Fujii, Y., Umehara, T., Yokoyama, S.

(2015) Sci Rep 5: 17204-17204

Released	2015-12-23
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 2
Unique Ligands	MN

Explore in 3D

5AY8 \| pdb_00005ay8	Download File View File

Crystal structure of human nucleosome containing H3.Y

Kujirai, T., Horikoshi, N., Sato, K., Maehara, K., Machida, S., Osakabe, A., Kimura, H., Ohkawa, Y., Kurumizaka, H.

(2016) Nucleic Acids Res 44: 6127-6141

Released	2016-04-06
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Homo sapiens
Macromolecule	H3.Y (protein) Histone H2A type 1-B/E (protein) Histone H2B type 1-J (protein) Histone H4 (protein) DNA (146-MER) (nucleic acid)
Unique Ligands	CL, MN

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5B0Y \| pdb_00005b0y	Download File View File

Crystal structure of the nucleosome containing histone H3 with the crotonylated lysine 122

Suzuki, Y., Horikoshi, N., Kurumizaka, H.

(2016) Biochem Biophys Res Commun 469: 483-489

Released	2016-01-27
Method	X-RAY DIFFRACTION 2.557 Å
Organisms	Homo sapiens
Macromolecule	Histone H2A type 1-B/E (protein) Histone H2B type 1-J (protein) Histone H3.2 (protein) Histone H4 (protein) DNA (146-MER) (nucleic acid)
Unique Ligands	CL, MN

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5B0Z \| pdb_00005b0z	Download File View File

The crystal structure of the nucleosome containing H3.2, at 1.98 A resolution

Suzuki, Y., Horikoshi, N., Kato, D., Kurumizaka, H.

(2016) Biochem Biophys Res Commun 469: 483-489

Released	2016-01-27
Method	X-RAY DIFFRACTION 1.987 Å
Organisms	Homo sapiens
Macromolecule	Histone H2A type 1-B/E (protein) Histone H2B type 1-J (protein) Histone H3.2 (protein) Histone H4 (protein) DNA (146-MER) (nucleic acid)
Unique Ligands	CL, MN

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5B1L \| pdb_00005b1l	Download File View File

The mouse nucleosome structure containing H3t

Urahama, T., Machida, S., Horikoshi, N., Osakabe, A., Tachiwana, H., Taguchi, H., Kurumizaka, H.

(2017) Cell Rep 18: 593-600

Released	2017-02-15
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Histone H2A type 1 (protein) Histone H2B type 3-A (protein) Histone H3t (protein) Histone H4 (protein) DNA (146-MER) (nucleic acid)
Unique Ligands	CL, MN

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5B1M \| pdb_00005b1m	Download File View File

The mouse nucleosome structure containing H3.1

Urahama, T., Machida, S., Horikoshi, N., Osakabe, A., Tachiwana, H., Taguchi, H., Kurumizaka, H.

(2017) Cell Rep 18: 593-600

Released	2017-02-15
Method	X-RAY DIFFRACTION 2.34 Å
Organisms	Homo sapiens Mus musculus
Macromolecule	Histone H2A type 1 (protein) Histone H2B type 3-A (protein) Histone H3.1 (protein) Histone H4 (protein) DNA (146-MER) (nucleic acid)

1 to 25 of 322 Structures

Page 1 of 13

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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

Symmetry Type

SCOP Classification

3W96 | pdb_00003w96

3W97 | pdb_00003w97

3W98 | pdb_00003w98

3W99 | pdb_00003w99

3WTP | pdb_00003wtp

3X1S | pdb_00003x1s

4H9N | pdb_00004h9n

4H9O | pdb_00004h9o

4H9P | pdb_00004h9p

4H9Q | pdb_00004h9q

4H9R | pdb_00004h9r

4H9S | pdb_00004h9s

4HGA | pdb_00004hga

4Z5T | pdb_00004z5t

5AV5 | pdb_00005av5

5AV6 | pdb_00005av6

5AV8 | pdb_00005av8

5AV9 | pdb_00005av9

5AVB | pdb_00005avb

5AVC | pdb_00005avc

5AY8 | pdb_00005ay8

5B0Y | pdb_00005b0y

5B0Z | pdb_00005b0z

5B1L | pdb_00005b1l

5B1M | pdb_00005b1m