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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Verdine, G.L."

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Search Summary

This query matches 155 Structures.

Refinements

Structure Determination Methodology

experimental (155)

Scientific Name of Source Organism

	Homo sapiens (70)
	Geobacillus stearothermophilus (56)
	synthetic construct (36)
	Escherichia coli (15)
	[Bacillus] caldotenax (4)
	Escherichia coli K-12 (3)
	Saccharomyces cerevisiae (2)
	Geobacillus kaustophilus (strain HTA426) (1)
	Geobacillus stearothermophilus 10 (1)
	Haemophilus aegyptius (1)

More...

Taxonomy

	Bacteria (83)
	Eukaryota (70)
	other sequences (36)
	Riboviria (1)

Experimental Method

	X-RAY DIFFRACTION (150)
	SOLUTION NMR (5)

Polymer Entity Type

	Protein (154)
	DNA (105)
	RNA (1)

Refinement Resolution (Å)

	1.0 - 1.5 (3)
	1.5 - 2.0 (47)
	2.0 - 2.5 (60)
	2.5 - 3.0 (31)
	3.0 - 3.5 (5)
	3.5 - 4.0 (4)

Release Date

	1990 - 1994 (1)
	1995 - 1999 (8)
	2000 - 2004 (26)
	2005 - 2009 (53)
	2010 - 2014 (28)
	2015 - 2019 (12)
	2020 - 2024 (27)

Enzyme Classification Name

	Hydrolases (99)
	Lyases (67)
	Transferases (27)
	Isomerases (4)
	Ligases (1)

Symmetry Type

	Asymmetric (138)
	Cyclic (9)
	Dihedral (10)

SCOP Classification

	All alpha proteins (65)
	Alpha and beta proteins (a+b) (38)
	All beta proteins (35)
	Small proteins (26)
	Artifacts (25)
	Alpha and beta proteins (a/b) (7)
	Multi-domain proteins (alpha and beta) (1)

AllSelected

1 to 25 of 155 Structures

Page 1 of 7

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1A3Q \| pdb_00001a3q	Download File View File

HUMAN NF-KAPPA-B P52 BOUND TO DNA

Cramer, P., Larson, C.J., Verdine, G.L., Muller, C.W.

(1997) EMBO J 16: 7078-7090

Released	1998-06-11
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	PROTEIN (NUCLEAR FACTOR KAPPA-B P52) (protein) DNA (5'-D(GPGPGPGPAPAPTPCPCPCPC)-3') (nucleic acid) DNA (5'-D(GPGPGPGPAPTPTPCPCPCPC)-3') (nucleic acid)

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1A66 \| pdb_00001a66	Download File View File

SOLUTION NMR STRUCTURE OF THE CORE NFATC1/DNA COMPLEX, 18 STRUCTURES

Zhou, P., Sun, L.J., Doetsch, V., Wagner, G., Verdine, G.L.

(1998) Cell 92: 687-696

Released	1998-06-17
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	CORE NFATC1 (protein) DNA (5'-D(CPAPAPTPTPTPTPCPCPTPCPG)-3') (nucleic acid) DNA (5'-D(CPGPAPGPGPAPAPAPAPTPTPG)-3') (nucleic acid)

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1ADN \| pdb_00001adn	Download File View File

SOLUTION STRUCTURE OF THE DNA METHYLPHOSPHOTRIESTER REPAIR DOMAIN OF ESCHERICHIA COLI ADA

Myers, L.C., Verdine, G.L., Wagner, G.

(1993) Biochemistry 32: 14089-14094

Released	1994-01-31
Method	SOLUTION NMR
Organisms	Escherichia coli
Macromolecule	N-ADA 10 (protein)
Unique Ligands	ZN

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1BNK \| pdb_00001bnk	Download File View File

HUMAN 3-METHYLADENINE DNA GLYCOSYLASE COMPLEXED TO DNA

Lau, A.Y., Schaerer, O.D., Samson, L., Verdine, G.L., Ellenberger, T.

(1998) Cell 95: 249-258

Released	1998-10-21
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Homo sapiens
Macromolecule	PROTEIN (3-METHYLADENINE DNA GLYCOSYLASE) (protein) DNA (5'-D(GPAPCPAPTPGPYRRPTPTPGPCPCPT)-3') (nucleic acid) DNA (5'-D(GPGPCPAPAPTPCPAPTPGPTPCPA)-3') (nucleic acid)

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1CW9 \| pdb_00001cw9	Download File View File

DNA DECAMER WITH AN ENGINEERED CROSSLINK IN THE MINOR GROOVE

van Aalten, D.M.F., Erlanson, D.A., Verdine, G.L., Joshua-Tor, L.

(1999) Proc Natl Acad Sci U S A 96: 11809-11814

Released	1999-10-14
Method	X-RAY DIFFRACTION 1.55 Å
Macromolecule	5'-D(CPCPAPGP(G47)PCPCPTPGPG)-3' (nucleic acid)
Unique Ligands	CA

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1DCT \| pdb_00001dct	Download File View File

DNA (CYTOSINE-5) METHYLASE FROM HAEIII COVALENTLY BOUND TO DNA

Reinisch, K.M., Chen, L., Verdine, G.L., Lipscomb, W.N.

(1995) Cell 82: 143-153

Released	1995-09-15
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Haemophilus influenzae biotype aegyptius
Macromolecule	PROTEIN (MODIFICATION METHYLASE HAEIII) (protein) DNA (5'-D(APCPCPAPGPCPAPGPGP(C49)PCPAPCPCPAPGPTPG)-3') (nucleic acid) DNA (5'-D(TPCPAPCPTPGPGPTPGPGP(C5M)PCPTPGPCPTPGPG)-3') (nucleic acid)
Unique Ligands	CA

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1EBM \| pdb_00001ebm	Download File View File

CRYSTAL STRUCTURE OF THE HUMAN 8-OXOGUANINE GLYCOSYLASE (HOGG1) BOUND TO A SUBSTRATE OLIGONUCLEOTIDE

Bruner, S.D., Norman, D.P., Verdine, G.L.

(2000) Nature 403: 859-866

Released	2000-03-20
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	8-OXOGUANINE DNA GLYCOSYLASE (protein) DNA (5'-D(GPCPGPTPCPCPAP(8OG)PGPTPCPTPAPCPC)-3') (nucleic acid) DNA (5'-D(GPGPTPAPGPAPCPCPTPGPGPAPCPGPC)-3') (nucleic acid)
Unique Ligands	CA

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1EYF \| pdb_00001eyf	Download File View File

REFINED STRUCTURE OF THE DNA METHYL PHOSPHOTRIESTER REPAIR DOMAIN OF E. COLI ADA

Lin, Y., Dotsch, V., Wintner, T., Peariso, K., Myers, L.C., Penner-Hahn, J.E., Verdine, G.L., Wagner, G.

(2001) Biochemistry 40: 4261-4271

Released	2003-09-09
Method	SOLUTION NMR
Organisms	Escherichia coli
Macromolecule	ADA REGULATORY PROTEIN (protein)
Unique Ligands	ZN

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1FN7 \| pdb_00001fn7	Download File View File

COUPLING OF DAMAGE RECOGNITION AND CATALYSIS BY A HUMAN BASE-EXCISION DNA REPAIR PROTEIN

Norman, D.P.G., Bruner, S.D., Verdine, G.L.

(2001) J Am Chem Soc 123: 359-360

Released	2001-04-21
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Homo sapiens
Macromolecule	8-OXOGUANINE DNA GLYCOSYLASE 1 (protein) DNA (5'-D(GPCPGPTPCPCPAP(3DR)PGPTPCPTPAPCPC)-3') (nucleic acid) DNA (5'-D(GPGPTPAPGPAPCPCPTPGPGPAPCPGPC)-3') (nucleic acid)
Unique Ligands	CA

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1HU0 \| pdb_00001hu0	Download File View File

CRYSTAL STRUCTURE OF AN HOGG1-DNA BOROHYDRIDE TRAPPED INTERMEDIATE COMPLEX

Fromme, J.C., Bruner, S.D., Yang, W., Karplus, M., Verdine, G.L.

(2003) Nat Struct Biol 10: 204-211

Released	2003-02-25
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Homo sapiens
Macromolecule	8-OXOGUANINE DNA GLYCOSYLASE 1 (protein) 5'-D(GPCPGPTPCPCPAP(PED)PGPTPCPTPAPCPC)-3' (nucleic acid) 5'-D(GPGPTPAPGPAPCPCPTPGPGPAPCPGPC)-3' (nucleic acid)
Unique Ligands	CA, OXG

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1L1T \| pdb_00001l1t	Download File View File

MutM (Fpg) Bound to Abasic-Site Containing DNA

Fromme, J.C., Verdine, G.L.

(2002) Nat Struct Biol 9: 544-552

Released	2002-06-14
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Geobacillus stearothermophilus
Macromolecule	MutM (protein) 5'-D(APGGPTPAPGPAPCPCPTPGPGPAPCPGPC)-3' (nucleic acid) 5'-D(TPGPCGPTPCPCPAP(HPD)PGPTPCPTPAPCPC)-3' (nucleic acid)
Unique Ligands	ZN

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1L1Z \| pdb_00001l1z	Download File View File

MutM (Fpg) Covalent-DNA Intermediate

Fromme, J.C., Verdine, G.L.

(2002) Nat Struct Biol 9: 544-552

Released	2002-06-14
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Geobacillus stearothermophilus
Macromolecule	MutM (protein) 5'-D(APGGPTPAPGPAPCPCPTPGPGPAPCPGPC)-3' (nucleic acid) 5'-D(TPGPCGPTPCPCPAP(PED)PGPTPCPTPAPCPC)-3' (nucleic acid)
Unique Ligands	ZN

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1L2B \| pdb_00001l2b	Download File View File

MutM (Fpg) DNA End-Product Structure

Fromme, J.C., Verdine, G.L.

(2002) Nat Struct Biol 9: 544-552

Released	2002-06-14
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Geobacillus stearothermophilus
Macromolecule	MutM (protein) 5'-D(APGPGPTPAPGPAPCPCPTPGPGPAPCPGPC)-3' (nucleic acid) 5'-D(TPGPCPGPTPCPC(AD2))-3' (nucleic acid) 5'-D(PGPTPCPTPAPCP*C)-3' (nucleic acid)
Unique Ligands	ZN

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1L2C \| pdb_00001l2c	Download File View File

MutM (Fpg)-DNA Estranged Thymine Mismatch Recognition Complex

Fromme, J.C., Verdine, G.L.

(2002) Nat Struct Biol 9: 544-552

Released	2002-06-14
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Geobacillus stearothermophilus
Macromolecule	MutM (protein) 5'-D(APGGPTPAPGPAPCPTPTPGPGPAPCPGPC)-3' (nucleic acid) 5'-D(TPGPCGPTPCPCPAP(HPD)PGPTPCPTPAPCPC)-3' (nucleic acid)
Unique Ligands	ZN

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1L2D \| pdb_00001l2d	Download File View File

MutM (Fpg)-DNA Estranged Guanine Mismatch Recognition Complex

Fromme, J.C., Verdine, G.L.

(2002) Nat Struct Biol 9: 544-552

Released	2002-06-14
Method	X-RAY DIFFRACTION 2 Å
Organisms	Geobacillus stearothermophilus
Macromolecule	MutM (protein) 5'-D(APGGPTPAPGPAPCPGPTPGPGPAPCPGPC)-3' (nucleic acid) 5'-D(TPGPCGPTPCPCPAP(HPD)PGPTPCPTPAPCPC)-3' (nucleic acid)
Unique Ligands	ZN

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1LWV \| pdb_00001lwv	Download File View File

Borohydride-trapped hOgg1 Intermediate Structure Co-Crystallized with 8-aminoguanine

Fromme, J.C., Bruner, S.D., Yang, W., Karplus, M., Verdine, G.L.

(2003) Nat Struct Biol 10: 204-211

Released	2003-02-25
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Homo sapiens
Macromolecule	8-OXOGUANINE DNA GLYCOSYLASE (protein) 5'-D(GPCPGPTPCPCPAP(PED)PGPTPCPTPAPCPC)-3' (nucleic acid) 5'-D(GPGPTPAPGPAPCPCPTPGPGPAPCPGPC)-3' (nucleic acid)
Unique Ligands	ANG, CA

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1LWW \| pdb_00001lww	Download File View File

Borohydride-trapped hOgg1 Intermediate Structure Co-Crystallized with 8-bromoguanine

Fromme, J.C., Bruner, S.D., Yang, W., Karplus, M., Verdine, G.L.

(2003) Nat Struct Biol 10: 204-211

Released	2003-02-25
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	8-OXOGUANINE DNA GLYCOSYLASE (protein) 5'-D(GPCPGPTPCPCPAP(PED)PGPTPCPTPAPCPC)-3' (nucleic acid) 5'-D(GPGPTPAPGPAPCPCPTPGPGPAPCPGPC)-3' (nucleic acid)
Unique Ligands	BRG, CA

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1LWY \| pdb_00001lwy	Download File View File

hOgg1 Borohydride-Trapped Intermediate without 8-oxoguanine

Fromme, J.C., Bruner, S.D., Yang, W., Karplus, M., Verdine, G.L.

(2003) Nat Struct Biol 10: 204-211

Released	2003-02-25
Method	X-RAY DIFFRACTION 2.01 Å
Organisms	Homo sapiens
Macromolecule	8-OXOGUANINE DNA GLYCOSYLASE (protein) 5'-D(GPCPGPTPCPCPAP(PED)PGPTPCPTPAPCPC)-3' (nucleic acid) 5'-D(GPGPTPAPGPAPCPCPTPGPGPAPCPGPC)-3' (nucleic acid)

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1M3H \| pdb_00001m3h	Download File View File

Crystal Structure of Hogg1 D268E Mutant with Product Oligonucleotide

Chung, S.J., Verdine, G.L.

(2004) Chem Biol 11: 1643-1649

Released	2004-04-20
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Homo sapiens
Macromolecule	8-Oxoguanine DNA Glycosylase (protein) 5'-D(PGPCPGPTPCPCPAP(DDX))-3' (nucleic acid) 5'-D(PGPGPTPAPGPAPCPCPTPGPGPAPCPGPC)-3' (nucleic acid) 5'-D(PGPTPCPTPAPCPC)-3' (nucleic acid)
Unique Ligands	CA

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1M3Q \| pdb_00001m3q	Download File View File

Crystal Structure of hogg1 D268E Mutant with Base-Excised DNA and 8-aminoguanine

Chung, S.J., Verdine, G.L.

(2004) Chem Biol 11: 1643-1649

Released	2004-02-17
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Homo sapiens
Macromolecule	8-oxoguanine DNA glycosylase (protein) 5'-D(GPCPGPTPCPCPAP(DRZ)PGPTPCPTPAPCPC)-3' (nucleic acid) 5'-D(GPGPTPAPGPAPCPCPTPGPGPAPCPGPC)-3' (nucleic acid)
Unique Ligands	ANG, CA

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1MPG \| pdb_00001mpg	Download File View File

3-METHYLADENINE DNA GLYCOSYLASE II FROM ESCHERICHIA COLI

Labahn, J., Schaerer, O.D., Long, A., Ezaz-Nikpay, K., Verdine, G.L., Ellenberger, T.E.

(1996) Cell 86: 321-329

Released	1998-01-28
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Escherichia coli
Macromolecule	3-METHYLADENINE DNA GLYCOSYLASE II (protein)
Unique Ligands	GOL

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1MQ0 \| pdb_00001mq0	Download File View File

Crystal Structure of Human Cytidine Deaminase

Chung, S.J., Fromme, J.C., Verdine, G.L.

(2005) J Med Chem 48: 658-660

Released	2003-11-04
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	Cytidine Deaminase (protein)
Unique Ligands	BRD, ZN

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1MWJ \| pdb_00001mwj	Download File View File

Crystal Structure of a MUG-DNA pseudo substrate complex

Barrett, T.E., Scharer, O., Savva, R., Brown, T., Jiricny, J., Verdine, G.L., Pearl, L.H.

(1999) EMBO J 18: 6599-6609

Released	2002-10-11
Method	X-RAY DIFFRACTION 2.85 Å
Organisms	Escherichia coli
Macromolecule	G/U mismatch-specific DNA glycosylase (protein) 5'-D(CPGPCPGPAGP(DU)PTPCPGPCPG)-3' (nucleic acid)

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1N39 \| pdb_00001n39	Download File View File

Structural and biochemical exploration of a critical amino acid in human 8-oxoguanine glycosylase

Norman, D.P., Chung, S.J., Verdine, G.L.

(2003) Biochemistry 42: 1564-1572

Released	2003-03-04
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens
Macromolecule	N-glycosylase/DNA lyase (protein) DNA complement strand (nucleic acid) DNA inhibitor strand (nucleic acid)
Unique Ligands	CA

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1N3A \| pdb_00001n3a	Download File View File

Structural and biochemical exploration of a critical amino acid in human 8-oxoguanine glycosylase

Norman, D.P., Chung, S.J., Verdine, G.L.

(2003) Biochemistry 42: 1564-1572

Released	2003-03-04
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Homo sapiens
Macromolecule	N-glycosylase/DNA lyase (protein) DNA complement strand (nucleic acid) DNA inhibitor strand (nucleic acid)
Unique Ligands	CA

1 to 25 of 155 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.

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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

1A3Q | pdb_00001a3q

1A66 | pdb_00001a66

1ADN | pdb_00001adn

1BNK | pdb_00001bnk

1CW9 | pdb_00001cw9

1DCT | pdb_00001dct

1EBM | pdb_00001ebm

1EYF | pdb_00001eyf

1FN7 | pdb_00001fn7

1HU0 | pdb_00001hu0

1L1T | pdb_00001l1t

1L1Z | pdb_00001l1z

1L2B | pdb_00001l2b

1L2C | pdb_00001l2c

1L2D | pdb_00001l2d

1LWV | pdb_00001lwv

1LWW | pdb_00001lww

1LWY | pdb_00001lwy

1M3H | pdb_00001m3h

1M3Q | pdb_00001m3q

1MPG | pdb_00001mpg

1MQ0 | pdb_00001mq0

1MWJ | pdb_00001mwj

1N39 | pdb_00001n39

1N3A | pdb_00001n3a