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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Gene Name = "H4C3"

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Search Summary

This query matches 114 Structures.

Refinements

Structure Determination Methodology

experimental (114)

Scientific Name of Source Organism

	Homo sapiens (114)
	synthetic construct (46)
	Komagataella phaffii (8)
	Human gammaherpesvirus 8 (2)
	Human spumaretrovirus (2)
	Aequorea victoria (1)
	Gallus gallus (1)
	Mus musculus (1)
	Saccharomyces cerevisiae S288C (1)
	Streptococcus pyogenes (1)

More...

Taxonomy

	Eukaryota (114)
	other sequences (47)
	Eukaryota (eukaryotes) (13)
	Duplodnaviria (2)
	Riboviria (2)
	Bacteria (1)

Experimental Method

	ELECTRON MICROSCOPY (88)
	X-RAY DIFFRACTION (24)
	SOLUTION NMR (2)

Polymer Entity Type

	Protein (114)
	DNA (96)
	RNA (9)

Refinement Resolution (Å)

	1.0 - 1.5 (2)
	1.5 - 2.0 (7)
	2.0 - 2.5 (4)
	2.5 - 3.0 (14)
	3.0 - 3.5 (43)
	3.5 - 4.0 (29)
	4.0 - 4.5 (9)
	> 4.5 (4)

Release Date

	2005 - 2009 (11)
	2010 - 2014 (2)
	2020 - 2024 (89)
	2025 - 2029 (12)

Enzyme Classification Name

	Transferases (61)
	Hydrolases (9)
	Lyases (7)
	Oxidoreductases (2)

Symmetry Type

	Asymmetric (92)
	Cyclic (22)
	Helical (1)

SCOP Classification

	All alpha proteins (3)
	Artifacts (2)
	All beta proteins (2)
	Alpha and beta proteins (a+b) (1)

AllSelected

1 to 25 of 114 Structures

Page 1 of 5

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1ZKK \| pdb_00001zkk	Download File View File

Crystal structure of hSET8 in ternary complex with H4 peptide (16-24) and AdoHcy

Couture, J.-F., Collazo, E., Brunzelle, J.S., Trievel, R.C.

(2005) Genes Dev 19: 1455-1465

Released	2005-06-07
Method	X-RAY DIFFRACTION 1.45 Å
Organisms	Homo sapiens
Macromolecule	Histone-lysine N-methyltransferase, H4 lysine-20 specific (protein) Peptide corresponding to residues 15-24 of histone H4 (protein)
Unique Ligands	SAH

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2IG0 \| pdb_00002ig0	Download File View File

Structure of 53BP1/methylated histone peptide complex

Mer, G.

(2006) Cell 127: 1361-1373

Released	2007-01-02
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Homo sapiens
Macromolecule	Dimethylated Histone H4-K20 peptide (protein) Tumor suppressor p53-binding protein 1 (protein)
Unique Ligands	SO4

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2KWN \| pdb_00002kwn	Download File View File

Solution structure of the double PHD (plant homeodomain) fingers of human transcriptional protein DPF3b bound to a histone H4 peptide containing acetylation at Lysine 16

Zeng, L., Zhang, Q., Li, S., Plotnikov, A.N., Walsh, M.J., Zhou, M.

(2010) Nature 466: 258-262

Released	2010-07-14
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Histone peptide (protein) Zinc finger protein DPF3 (protein)
Unique Ligands	ZN

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2KWO \| pdb_00002kwo	Download File View File

Solution structure of the double PHD (plant homeodomain) fingers of human transcriptional protein DPF3b bound to a histone H4 peptide containing N-terminal acetylation at Serine 1

Zeng, L., Zhang, Q., Li, S., Plotnikov, A.N., Walsh, M.J., Zhou, M.

(2010) Nature 466: 258-262

Released	2010-07-14
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Histone peptide (protein) Zinc finger protein DPF3 (protein)
Unique Ligands	ZN

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2QQS \| pdb_00002qqs	Download File View File

JMJD2A tandem tudor domains in complex with a trimethylated histone H4-K20 peptide

Lee, J., Botuyan, M.V., Mer, G.

(2008) Nat Struct Mol Biol 15: 109-111

Released	2007-12-11
Method	X-RAY DIFFRACTION 2.82 Å
Organisms	Homo sapiens
Macromolecule	JmjC domain-containing histone demethylation protein 3A (protein) METHYLATED HISTONE H4 PEPTIDE (protein)

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2RJE \| pdb_00002rje	Download File View File

Crystal structure of L3MBTL1 in complex with H4K20Me2 (residues 17-25), orthorhombic form II

Allali-Hassani, A., Liu, Y., Herzanych, N., Ouyang, H., Mackenzie, F., Crombet, L., Loppnau, P., Kozieradzki, I., Vedadi, M., Weigelt, J., Sundstrom, M., Arrowsmith, C.H., Edwards, A.M., Bochkarev, A., Min, J.R., Structural Genomics Consortium (SGC)

(2007) Nat Struct Mol Biol 14: 1229-1230

Released	2007-10-30
Method	X-RAY DIFFRACTION 1.86 Å
Organisms	Homo sapiens
Macromolecule	Histone H4 (protein) Lethal(3)malignant brain tumor-like protein (protein)
Unique Ligands	CL

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3CFV \| pdb_00003cfv	Download File View File

Structural basis of the interaction of RbAp46/RbAp48 with histone H4

Pei, X.-Y., Murzina, N.V., Zhang, W., McLaughlin, S., Verreault, A., Luisi, B.F., Laue, E.D.

(2008) Structure 16: 1077-1085

Released	2008-06-10
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Homo sapiens
Macromolecule	Histone H4 peptide (protein) Histone-binding protein RBBP7 (protein)
Unique Ligands	ARS

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3F9W \| pdb_00003f9w	Download File View File

Structural Insights into Lysine Multiple Methylation by SET Domain Methyltransferases, SET8-Y334F / H4-Lys20 / AdoHcy

Couture, J.-F., Dirk, L.M.A., Brunzelle, J.S., Houtz, R.L., Trievel, R.C.

(2008) Proc Natl Acad Sci U S A 105: 20659-20664

Released	2008-11-25
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Homo sapiens
Macromolecule	Histone H4 (protein) Histone-lysine N-methyltransferase SETD8 (protein)
Unique Ligands	SAH

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3F9X \| pdb_00003f9x	Download File View File

Structural Insights into Lysine Multiple Methylation by SET Domain Methyltransferases, SET8-Y334F / H4-Lys20me2 / AdoHcy

Couture, J.-F., Dirk, L.M.A., Brunzelle, J.S., Houtz, R.L., Trievel, R.C.

(2008) Proc Natl Acad Sci U S A 105: 20659-20664

Released	2008-11-25
Method	X-RAY DIFFRACTION 1.25 Å
Organisms	Homo sapiens
Macromolecule	Histone H4 (protein) Histone-lysine N-methyltransferase SETD8 (protein)
Unique Ligands	SAH

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3F9Y \| pdb_00003f9y	Download File View File

Structural Insights into Lysine Multiple Methylation by SET Domain Methyltransferases, SET8-Y334F / H4-Lys20me1 / AdoHcy

Couture, J.-F., Dirk, L.M.A., Brunzelle, J.S., Houtz, R.L., Trievel, R.C.

(2008) Proc Natl Acad Sci U S A 105: 20659-20664

Released	2008-11-25
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Homo sapiens
Macromolecule	Histone H4 (protein) Histone-lysine N-methyltransferase SETD8 (protein)
Unique Ligands	SAH

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3F9Z \| pdb_00003f9z	Download File View File

Structural Insights into Lysine Multiple Methylation by SET Domain Methyltransferases, SET8-Y245F / H4-Lys20 / AdoHcy

Couture, J.-F., Dirk, L.M.A., Brunzelle, J.S., Houtz, R.L., Trievel, R.C.

(2008) Proc Natl Acad Sci U S A 105: 20659-20664

Released	2008-11-25
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Homo sapiens
Macromolecule	Histone H4 (protein) Histone-lysine N-methyltransferase SETD8 (protein)
Unique Ligands	SAH

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3IJ1 \| pdb_00003ij1	Download File View File

Crystal structure of Eed in complex with a trimethylated histone H4K20 peptide

Justin, N., Sharpe, M.L., Martin, S., Taylor, W.R., De Marco, V., Gamblin, S.J.

(2009) Nature 461: 762-767

Released	2009-09-15
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	Histone H4K20 peptide (protein) Polycomb protein EED (protein)

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3JPX \| pdb_00003jpx	Download File View File

EED: A Novel Histone Trimethyllysine Binder Within The EED-EZH2 Polycomb Complex

Xu, C., Bian, C.B., Bountra, C., Weigelt, J., Arrowsmith, C.H., Edwards, A.M., Bochkarev, A., Min, J., Structural Genomics Consortium (SGC)

(2010) Proc Natl Acad Sci U S A 107: 19266-19271

Released	2009-10-20
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Homo sapiens
Macromolecule	HISTONE PEPTIDE (protein) Polycomb protein EED (protein)

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6USJ \| pdb_00006usj	Download File View File

Structure of two nucleosomes bridged by human PARP2

Gaullier, G., Bowerman, S., Luger, K.

(2020) PLoS One 15: e0240932-e0240932

Released	2020-10-14
Method	ELECTRON MICROSCOPY 10.5 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 2

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6V2K \| pdb_00006v2k	Download File View File

The nucleosome structure after H2A-H2B exchange

Arimura, Y., Hirano, R., Kurumizaka, H.

(2021) Commun Biol 4: 191-191

Released	2020-11-25
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Homo sapiens
Macromolecule	Histone H2A (protein) Histone H2B type 1-J (protein) Histone H3.1 (protein) Histone H4 (protein) DNA (146-MER) (nucleic acid)
Unique Ligands	CL, MN

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6Y5E \| pdb_00006y5e	Download File View File

Structure of human cGAS (K394E) bound to the nucleosome (focused refinement of cGAS-NCP subcomplex)

Pathare, G.R., Cavadini, S., Kempf, G., Thoma, N.H.

(2020) Nature 587: 668-672

Released	2020-09-23
Method	ELECTRON MICROSCOPY 3.15 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 8 Unique nucleic acid chains: 2
Unique Ligands	PTD, ZN

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6YOV \| pdb_00006yov	Download File View File

OCT4-SOX2-bound nucleosome - SHL+6

Michael, A.K., Kempf, G., Cavadini, S., Bunker, R.D., Thoma, N.H.

(2020) Science 368: 1460-1465

Released	2020-05-06
Method	ELECTRON MICROSCOPY 3.42 Å
Organisms	Aequorea victoria Homo sapiens synthetic construct
Macromolecule	Unique protein chains: 8 Unique nucleic acid chains: 1
Unique Ligands	PTD

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7C0M \| pdb_00007c0m	Download File View File

Human cGAS-nucleosome complex

Kujirai, T., Zierhut, C., Takizawa, Y., Kim, R., Negishi, L., Uruma, N., Hirai, S., Funabiki, H., Kurumizaka, H.

(2020) Science 370: 455-458

Released	2020-09-16
Method	ELECTRON MICROSCOPY 3.9 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 2
Unique Ligands	ZN

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7COW \| pdb_00007cow	Download File View File

353 bp di-nucleosome harboring cohesive DNA termini with linker histone H1.0

Adhireksan, Z., Sharma, D., Lee, P.L., Davey, C.A.

(2021) Nucleic Acids Res 49: e52-e52

Released	2021-08-11
Method	X-RAY DIFFRACTION 2.86 Å
Organisms	Homo sapiens other sequences
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 2
Unique Ligands	CA, CL, K

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7D1Z \| pdb_00007d1z	Download File View File

Cryo-EM structure of SET8-nucleosome complex

Ho, C.-H., Takizawa, Y., Kobayashi, W., Arimura, Y., Kurumizaka, H.

(2021) Life Sci Alliance 4:

Released	2021-02-10
Method	ELECTRON MICROSCOPY 3.15 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 2

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7D20 \| pdb_00007d20	Download File View File

Cryo-EM structure of SET8-CENP-A-nucleosome complex

Ho, C.-H., Takizawa, Y., Kobayashi, W., Arimura, Y., Kurumizaka, H.

(2021) Life Sci Alliance 4:

Released	2021-02-10
Method	ELECTRON MICROSCOPY 3 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	Unique protein chains: 5 Unique nucleic acid chains: 2

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7JZV \| pdb_00007jzv	Download File View File

Cryo-EM structure of the BRCA1-UbcH5c/BARD1 E3-E2 module bound to a nucleosome

Witus, S.R., Burrell, A.L., Hansen, J.M., Farrell, D.P., Dimaio, F., Kollman, J.M., Klevit, R.E.

(2021) Nat Struct Mol Biol 28: 268-277

Released	2021-02-17
Method	ELECTRON MICROSCOPY 3.9 Å
Organisms	Homo sapiens synthetic construct
Macromolecule	Unique protein chains: 6 Unique nucleic acid chains: 2
Unique Ligands	ZN

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7LYA \| pdb_00007lya	Download File View File

Cryo-EM structure of the human nucleosome core particle with linked histone proteins H2A and H2B

Hu, Q., Botuyan, M.V., Zhao, D., Cui, D., Mer, E., Mer, G.

(2021) Nature 596: 438-443

Released	2021-07-28
Method	ELECTRON MICROSCOPY 2.91 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 4 Unique nucleic acid chains: 2

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7LYB \| pdb_00007lyb	Download File View File

Cryo-EM structure of the human nucleosome core particle in complex with BRCA1-BARD1-UbcH5c

Hu, Q., Botuyan, M.V., Zhao, D., Cui, D., Mer, E., Mer, G.

(2021) Nature 596: 438-443

Released	2021-07-28
Method	ELECTRON MICROSCOPY 3.28 Å
Organisms	Homo sapiens
Macromolecule	Unique protein chains: 7 Unique nucleic acid chains: 2
Unique Ligands	ZN