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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Raoof, A."

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Search Summary

This query matches 8 Structures.

Refinements

Structure Determination Methodology

experimental (8)

Scientific Name of Source Organism

	Homo sapiens (5)
	Mus musculus (2)
	Human immunodeficiency virus 1 (1)

Taxonomy

	Eukaryota (7)
	Riboviria (1)

Experimental Method

X-RAY DIFFRACTION (8)

Polymer Entity Type

	Protein (8)
	DNA (3)

Refinement Resolution (Å)

	1.5 - 2.0 (4)
	2.0 - 2.5 (1)
	2.5 - 3.0 (1)
	3.0 - 3.5 (2)

Release Date

	2010 - 2014 (1)
	2015 - 2019 (4)
	2020 - 2024 (3)

Enzyme Classification Name

	Hydrolases (4)
	Transferases (3)

Symmetry Type

	Asymmetric (7)
	Cyclic (1)

SCOP Classification

All beta proteins (1)

AllSelected

1 to 8 of 8 Structures

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Explore in 3D

3R4B \| pdb_00003r4b	Download File View File

Crystal Structure of Wild-type HIV-1 Protease in Complex With TMC310911

Schiffer, C.A., Nalam, M.N.L.

(2011) Antimicrob Agents Chemother 55: 5723-5731

Released	2011-09-21
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	HIV-1 protease (protein)
Unique Ligands	74T, PO4

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5J3P \| pdb_00005j3p	Download File View File

Crystal structure of the catalytic domain of human tyrosyl DNA phosphodiesterase 2

Hornyak, P., Pearl, L.H., Caldecott, K.W., Oliver, A.W.

(2016) Biochem J 473: 1869-1879

Released	2016-05-04
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Homo sapiens
Macromolecule	Tyrosyl-DNA phosphodiesterase 2 (protein)
Unique Ligands	GOL, MG

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5J3S \| pdb_00005j3s	Download File View File

Crystal structure of the catalytic domain of human tyrosyl DNA phosphodiesterase 2 in complex with a small molecule inhibitor

Hornyak, P., Pearl, L.H., Caldecott, K.W., Oliver, A.W.

(2016) Biochem J 473: 1869-1879

Released	2016-05-04
Method	X-RAY DIFFRACTION 3.4 Å
Organisms	Homo sapiens
Macromolecule	Tyrosyl-DNA phosphodiesterase 2 (protein)
Unique Ligands	6FQ

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5J3Z \| pdb_00005j3z	Download File View File

Crystal structure of m2hTDP2-CAT in complex with a small molecule inhibitor

Hornyak, P., Pearl, L.H., Caldecott, K.W., Oliver, A.W.

(2016) Biochem J 473: 1869-1879

Released	2016-05-04
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Mus musculus
Macromolecule	Tyrosyl-DNA phosphodiesterase 2 (protein)
Unique Ligands	6FQ, ACT, EDO, GOL, MG

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5J42 \| pdb_00005j42	Download File View File

Crystal structure of m2hTDP2-CAT in complex with a small molecule inhibitor

Hornyak, P., Pearl, L.H., Caldecott, K.W., Oliver, A.W.

(2016) Biochem J 473: 1869-1879

Released	2016-05-04
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Mus musculus
Macromolecule	Tyrosyl-DNA phosphodiesterase 2 (protein)
Unique Ligands	6FV, EDO, GOL, MN, TLA

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6X9I \| pdb_00006x9i	Download File View File

Human DNMT1(729-1600) Bound to Zebularine-Containing 12mer dsDNA

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

(2021) Nat Cancer 2: 1002-1017

Released	2021-07-07
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens
Macromolecule	DNA (cytosine-5)-methyltransferase 1 (protein) DNA (5'-D(GPAPGPGPCP(5CM)PGPCPCPTPGPC)-3') (nucleic acid) DNA (5'-D(GPCPAPGPG)-R(P(PYO))-D(PGPGPCPCPTPC)-3') (nucleic acid)
Unique Ligands	EDO, GOL, SAH, ZN

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6X9J \| pdb_00006x9j	Download File View File

Human DNMT1(729-1600) Bound to Zebularine-Containing 12mer dsDNA and Inhibitor GSK3830052

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

(2021) Nat Cancer 2: 1002-1017

Released	2021-07-07
Method	X-RAY DIFFRACTION 1.79 Å
Organisms	Homo sapiens
Macromolecule	DNA (cytosine-5)-methyltransferase 1 (protein) DNA (5'-D(GPAPGPGPCP(5CM)PGPCPCPTPGPC)-3') (nucleic acid) DNA (5'-D(GPCPAPGPG)-R(P(PYO))-D(PGPGPCPCPTPC)-3') (nucleic acid)
Unique Ligands	EDO, X52, ZN

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6X9K \| pdb_00006x9k	Download File View File

Human DNMT1(729-1600) Bound to Zebularine-Containing 12mer dsDNA and Inhibitor GSK3685032A

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

(2021) Nat Cancer 2: 1002-1017

Released	2021-07-07
Method	X-RAY DIFFRACTION 2.65 Å
Organisms	Homo sapiens
Macromolecule	DNA (cytosine-5)-methyltransferase 1 (protein) DNA (5'-D(GPAPGPGPCP(5CM)PGPCPCPTPGPC)-3') (nucleic acid) DNA (5'-D(GPCPAPGPG)-R(P(PYO))-D(PGPGPCPCPTPC)-3') (nucleic acid)
Unique Ligands	EDO, UXM, ZN

1 to 8 of 8 Structures

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.

3R4B | pdb_00003r4b

Crystal Structure of Wild-type HIV-1 Protease in Complex With TMC310911

5J3P | pdb_00005j3p

Crystal structure of the catalytic domain of human tyrosyl DNA phosphodiesterase 2

5J3S | pdb_00005j3s

Crystal structure of the catalytic domain of human tyrosyl DNA phosphodiesterase 2 in complex with a small molecule inhibitor

5J3Z | pdb_00005j3z

Crystal structure of m2hTDP2-CAT in complex with a small molecule inhibitor

5J42 | pdb_00005j42

Crystal structure of m2hTDP2-CAT in complex with a small molecule inhibitor

6X9I | pdb_00006x9i

Human DNMT1(729-1600) Bound to Zebularine-Containing 12mer dsDNA

6X9J | pdb_00006x9j

Human DNMT1(729-1600) Bound to Zebularine-Containing 12mer dsDNA and Inhibitor GSK3830052

6X9K | pdb_00006x9k

Human DNMT1(729-1600) Bound to Zebularine-Containing 12mer dsDNA and Inhibitor GSK3685032A

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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

3R4B | pdb_00003r4b

5J3P | pdb_00005j3p

5J3S | pdb_00005j3s

5J3Z | pdb_00005j3z

5J42 | pdb_00005j42

6X9I | pdb_00006x9i

6X9J | pdb_00006x9j

6X9K | pdb_00006x9k