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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Woodcock, C.B."

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Search Summary

This query matches 24 Structures.

Refinements

Structure Determination Methodology

experimental (24)

Scientific Name of Source Organism

	Homo sapiens (23)
	Caulobacter vibrioides (1)
	synthetic construct (1)

Taxonomy

	Eukaryota (23)
	Bacteria (1)
	other sequences (1)

Experimental Method

X-RAY DIFFRACTION (24)

Polymer Entity Type

	Protein (24)
	DNA (3)

Refinement Resolution (Å)

	1.0 - 1.5 (3)
	1.5 - 2.0 (17)
	2.0 - 2.5 (4)

Release Date

	2015 - 2019 (19)
	2020 - 2024 (5)

Enzyme Classification Name

	Oxidoreductases (12)
	Transferases (9)
	Hydrolases (8)

Symmetry Type

	Asymmetric (24)
	Cyclic (7)

SCOP Classification

	All beta proteins (1)
	Artifacts (1)

AllSelected

1 to 24 of 24 Structures

Page 1 of 1

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6DQ4 \| pdb_00006dq4	Download File View File

LINKED KDM5A JMJ DOMAIN BOUND TO THE INHIBITOR GSK-J1

Horton, J.R., Cheng, X.

(2018) J Med Chem 61: 10588-10601

Released	2018-11-21
Method	X-RAY DIFFRACTION 1.392 Å
Organisms	Homo sapiens
Macromolecule	Linked KDM5A Jmj Domain (protein)
Unique Ligands	DMS, GOL, K0I, MN, SO4

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6DQ5 \| pdb_00006dq5	Download File View File

LINKED KDM5A JMJ DOMAIN BOUND TO THE INHIBITOR N43 i.e. 3-((6-(4-acryloyl-1,4-diazepan-1-yl)-2-(pyridin-2-yl)pyrimidin-4-yl)amino)propanoic acid

Horton, J.R., Cheng, X.

(2018) J Med Chem 61: 10588-10601

Released	2018-11-21
Method	X-RAY DIFFRACTION 1.89 Å
Organisms	Homo sapiens
Macromolecule	Linked KDM5A Jmj Domain (protein)
Unique Ligands	H6G, MN

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6DQ6 \| pdb_00006dq6	Download File View File

LINKED KDM5A JMJ DOMAIN BOUND TO THE INHIBITOR N44 i.e. 3-((2-(pyridin-2-yl)-6-(4-(vinylsulfonyl)-1,4-diazepan-1-yl)pyrimidin-4-yl)amino)propanoic acid

Horton, J.R., Cheng, X.

(2018) J Med Chem 61: 10588-10601

Released	2018-11-21
Method	X-RAY DIFFRACTION 1.587 Å
Organisms	Homo sapiens
Macromolecule	Linked KDM5A Jmj Domain (protein)
Unique Ligands	DMS, GOL, H6J, MN

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6DQ7 \| pdb_00006dq7	Download File View File

LINKED KDM5A JMJ DOMAIN BOUND TO THE POTENTIAL HYDROLYSIS PRODUCT OF INHIBITOR N45 i.e. 3-((6-(4-(2-cyano-3-methylbut-2-enoyl)-1,4-diazepan-1-yl)-2-(pyridin-2-yl)pyrimidin-4-yl)amino)propanoic acid

Horton, J.R., Cheng, X.

To be published

Released	2019-06-12
Method	X-RAY DIFFRACTION 1.852 Å
Organisms	Homo sapiens
Macromolecule	Linked KDM5A Jmj Domain (protein)
Unique Ligands	EDO, GOL, H6M, MN

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6DQ8 \| pdb_00006dq8	Download File View File

LINKED KDM5A JMJ DOMAIN BOUND TO THE INHIBITOR N49 i.e. 2-((2-chlorophenyl)(2-(1-methylpyrrolidin-2-yl)ethoxy)methyl)thieno[3,2-b]pyridine-7-carboxylic acid

Horton, J.R., Cheng, X.

(2018) J Med Chem 61: 10588-10601

Released	2018-11-21
Method	X-RAY DIFFRACTION 1.46 Å
Organisms	Homo sapiens
Macromolecule	Linked KDM5A Jmj Domain (protein)
Unique Ligands	DMS, EDO, H6S, H6T, MN, SO4

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6DQ9 \| pdb_00006dq9	Download File View File

Linked KDM5A JMJ Domain Bound to the Covalent Inhibitor N69 i.e. [2-((3-acrylamidophenyl)(2-(piperidin-1-yl)ethoxy)methyl)thieno[3,2-b]pyridine-7-carboxylic acid]

Horton, J.R., Cheng, X.

(2018) J Med Chem 61: 10588-10601

Released	2018-11-21
Method	X-RAY DIFFRACTION 1.748 Å
Organisms	Homo sapiens
Macromolecule	Linked KDM5A Jmj Domain (protein)
Unique Ligands	DMS, EDO, GOL, H74, MN

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6DQA \| pdb_00006dqa	Download File View File

Linked KDM5A JMJ Domain Bound to Inhibitor N70 i.e.[2-((3-aminophenyl)(2-(piperidin-1-yl)ethoxy)methyl)thieno[3,2-b]pyridine-7-carboxylic acid]

Horton, J.R., Cheng, X.

(2018) J Med Chem 61: 10588-10601

Released	2018-11-21
Method	X-RAY DIFFRACTION 1.888 Å
Organisms	Homo sapiens
Macromolecule	Linked KDM5A Jmj Domain (protein)
Unique Ligands	EDO, GOL, H6V, MN

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6DQB \| pdb_00006dqb	Download File View File

LINKED KDM5A JMJ DOMAIN FORMING COVALENT BOND TO INHIBITOR N71 i.e. 2-((3-(4-(dimethylamino)but-2-enamido)phenyl)(2-(piperidin-1-yl)ethoxy)methyl)thieno[3,2-b]pyridine-7-carboxylic acid

Horton, J.R., Cheng, X.

(2018) J Med Chem 61: 10588-10601

Released	2018-11-21
Method	X-RAY DIFFRACTION 1.791 Å
Organisms	Homo sapiens
Macromolecule	Linked KDM5A Jmj Domain (protein)
Unique Ligands	DMS, GOL, H77, HZM, HZV, MN

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6DQC \| pdb_00006dqc	Download File View File

LINKED KDM5A JMJ DOMAIN BOUND TO THE INHIBITOR N50 i.e. 2-(4-((2-(dimethylamino)ethyl)(ethyl)carbamoyl)-5-(4-methoxyphenyl)-1H-pyrazol-1-yl)isonicotinic acid

Horton, J.R., Cheng, X.

To be published

Released	2019-06-12
Method	X-RAY DIFFRACTION 1.755 Å
Organisms	Homo sapiens
Macromolecule	Linked KDM5A Jmj Domain (protein)
Unique Ligands	DMS, GOL, H5Y, MN, SO4

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6DQD \| pdb_00006dqd	Download File View File

LINKED KDM5A JMJ DOMAIN BOUND TO THE INHIBITOR N53 i.e. 2-(5-([1,1'-biphenyl]-3-yl)-4-(1-(2-(piperidin-1-yl)ethoxy)ethyl)-1H-pyrazol-1-yl)isonicotinic acid

Horton, J.R., Cheng, X.

To be published

Released	2019-06-12
Method	X-RAY DIFFRACTION 1.987 Å
Organisms	Homo sapiens
Macromolecule	Linked KDM5A Jmj Domain (protein)
Unique Ligands	DMS, GOL, H67, MN

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6DQE \| pdb_00006dqe	Download File View File

LINKED KDM5A JMJ DOMAIN BOUND TO THE INHIBITOR N67 i.e. 2-(5-phenyl-4-(phenyl(2-(piperidin-1-yl)ethoxy)methyl)-1H-pyrazol-1-yl)isonicotinic acid

Horton, J.R., Cheng, X.

To be published

Released	2019-06-12
Method	X-RAY DIFFRACTION 1.689 Å
Organisms	Homo sapiens
Macromolecule	Linked KDM5A Jmj Domain (protein)
Unique Ligands	DMS, GOL, H6A, MN

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6DQF \| pdb_00006dqf	Download File View File

LINKED KDM5A JMJ DOMAIN BOUND TO THE INHIBITOR N68 i.e. 2-(1-(2-(piperidin-1-yl)ethyl)-1H-benzo[d]imidazol-2-yl)thieno[3,2-b]pyridine-7-carboxylic acid

Horton, J.R., Cheng, X.

To be published

Released	2019-06-12
Method	X-RAY DIFFRACTION 1.688 Å
Organisms	Homo sapiens
Macromolecule	Linked KDM5A Jmj Domain (protein)
Unique Ligands	H61, MN

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6OX0 \| pdb_00006ox0	Download File View File

SETD3 in Complex with an Actin Peptide with Sinefungin Replacing SAH as Cofactor

Horton, J.R., Dai, S., Cheng, X.

(2019) Nat Commun 10: 3541-3541

Released	2019-08-21
Method	X-RAY DIFFRACTION 1.755 Å
Organisms	Homo sapiens
Macromolecule	Actin Peptide (protein) Histone-lysine N-methyltransferase setd3 (protein)
Unique Ligands	EDO, SFG

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6OX1 \| pdb_00006ox1	Download File View File

SETD3 in Complex with an Actin Peptide with Target Histidine Partially Methylated

Horton, J.R., Dai, S., Cheng, X.

(2019) Nat Commun 10: 3541-3541

Released	2019-08-21
Method	X-RAY DIFFRACTION 1.949 Å
Organisms	Homo sapiens
Macromolecule	Actin, cytoplasmic 1 (protein) Histone-lysine N-methyltransferase setd3 (protein)
Unique Ligands	EDO, GOL, SAH

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6OX2 \| pdb_00006ox2	Download File View File

SETD3in Complex with an Actin Peptide with the Target Histidine Fully Methylated

Horton, J.R., Dai, S., Cheng, X.

(2019) Nat Commun 10: 3541-3541

Released	2019-08-21
Method	X-RAY DIFFRACTION 2.089 Å
Organisms	Homo sapiens
Macromolecule	Actin Peptide (protein) Histone-lysine N-methyltransferase setd3 (protein)
Unique Ligands	EDO, GOL, SAH

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6OX3 \| pdb_00006ox3	Download File View File

SETD3 in Complex with an Actin Peptide with His73 Replaced with Lysine

Horton, J.R., Dai, S., Cheng, X.

(2019) Nat Commun 10: 3541-3541

Released	2019-08-21
Method	X-RAY DIFFRACTION 1.785 Å
Organisms	Homo sapiens
Macromolecule	Actin Peptide (protein) Histone-lysine N-methyltransferase setd3 (protein)
Unique Ligands	ACT, EDO, GOL, PGE, SAH

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6OX4 \| pdb_00006ox4	Download File View File

A SETD3 Mutant (N255A) in Complex with an Actin Peptide

Horton, J.R., Dai, S., Cheng, X.

(2019) Nat Commun 10: 3541-3541

Released	2019-08-21
Method	X-RAY DIFFRACTION 2.294 Å
Organisms	Homo sapiens
Macromolecule	Actin Peptide (protein) Actin-histidine N-methyltransferase (protein)
Unique Ligands	ACT, EDO, GOL, SAH

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6OX5 \| pdb_00006ox5	Download File View File

A SETD3 Mutant (N255A) in Complex with an Actin Peptide with His73 Replaced with Lysine

Horton, J.R., Dai, S., Cheng, X.

(2019) Nat Commun 10: 3541-3541

Released	2019-08-21
Method	X-RAY DIFFRACTION 2.098 Å
Organisms	Homo sapiens
Macromolecule	Actin Peptide (protein) Actin-histidine N-methyltransferase (protein)
Unique Ligands	EDO, SAH

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6PBD \| pdb_00006pbd	Download File View File

DNA N6-Adenine Methyltransferase CcrM In Complex with Double-Stranded DNA Oligonucleotide Containing Its Recognition Sequence GAATC

Horton, J.R., Cheng, X., Woodcock, C.B.

(2019) Nat Commun 10: 4600-4600

Released	2019-10-23
Method	X-RAY DIFFRACTION 2.343 Å
Organisms	Caulobacter vibrioides synthetic construct
Macromolecule	Modification methylase CcrMI (protein) DNA (5'-D(CPGPAPTPTPCPAPAPTPGPAPAPTPCPCPCPAPAPG)-3') (nucleic acid) DNA (5'-D(GPCPTPTPGPGPGPAPTPTPCPAPTPTPGPAPAPTPC)-3') (nucleic acid)
Unique Ligands	EDO, SFG

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6WE8 \| pdb_00006we8	Download File View File

YTH domain of human YTHDC1

Horton, J.R., Cheng, X.

(2020) Nucleic Acids Res 48: 10329-10341

Released	2020-07-15
Method	X-RAY DIFFRACTION 1.18 Å
Organisms	Homo sapiens
Macromolecule	YTH domain-containing protein 1 (protein)
Unique Ligands	EDO, GOL, SO4

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6WE9 \| pdb_00006we9	Download File View File

YTH domain of human YTHDC1 with 11mer ssDNA Containing N6mA

Horton, J.R., Cheng, X.

(2020) Nucleic Acids Res 48: 10329-10341

Released	2020-07-15
Method	X-RAY DIFFRACTION 1.59 Å
Organisms	Homo sapiens
Macromolecule	YTH domain-containing protein 1 (protein) DNA (5'-D(CPGPCPGPGP(6MA)PCPTPCPTP*G)-3') (nucleic acid)
Unique Ligands	EDO, GOL, SO4

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6WEA \| pdb_00006wea	Download File View File

YTH domain of human YTHDC1 with a 10mer Oligo Containing N6mA

Horton, J.R., Cheng, X.

(2020) Nucleic Acids Res 48: 10329-10341

Released	2020-07-15
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Homo sapiens
Macromolecule	YTH domain-containing protein 1 (protein) DNA (5'-D(CPGPCPGPGP(6MA)PCPTPTPC)-3') (nucleic acid)
Unique Ligands	EDO, NA, SO4

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6WK1 \| pdb_00006wk1	Download File View File

SETD3 in Complex with an Actin Peptide with His73 Replaced with Methionine

Dai, S., Horton, J.R., Cheng, X.

(2020) J Biological Chem 295: 10901-10910

Released	2020-06-17
Method	X-RAY DIFFRACTION 1.89 Å
Organisms	Homo sapiens
Macromolecule	Actin, cytoplasmic 2 (protein) Actin-histidine N-methyltransferase (protein)
Unique Ligands	ACT, EDO, GOL, SAH

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6WK2 \| pdb_00006wk2	Download File View File

SETD3 mutant (N255V) in Complex with an Actin Peptide with His73 Replaced with Methionine

Dai, S., Horton, J.R., Cheng, X.

(2020) J Biological Chem 295: 10901-10910

Released	2020-06-17
Method	X-RAY DIFFRACTION 1.76 Å
Organisms	Homo sapiens
Macromolecule	Actin, cytoplasmic 2 (protein) Actin-histidine N-methyltransferase (protein)
Unique Ligands	EDO, NA, SAM

1 to 24 of 24 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

Symmetry Type

SCOP Classification

6DQ4 | pdb_00006dq4

6DQ5 | pdb_00006dq5

6DQ6 | pdb_00006dq6

6DQ7 | pdb_00006dq7

6DQ8 | pdb_00006dq8

6DQ9 | pdb_00006dq9

6DQA | pdb_00006dqa

6DQB | pdb_00006dqb

6DQC | pdb_00006dqc

6DQD | pdb_00006dqd

6DQE | pdb_00006dqe

6DQF | pdb_00006dqf

6OX0 | pdb_00006ox0

6OX1 | pdb_00006ox1

6OX2 | pdb_00006ox2

6OX3 | pdb_00006ox3

6OX4 | pdb_00006ox4

6OX5 | pdb_00006ox5

6PBD | pdb_00006pbd

6WE8 | pdb_00006we8

6WE9 | pdb_00006we9

6WEA | pdb_00006wea

6WK1 | pdb_00006wk1

6WK2 | pdb_00006wk2