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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Smith, J.A."

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Search Summary

This query matches 49 Structures.

Refinements

Structure Determination Methodology

experimental (49)

Scientific Name of Source Organism

	Human immunodeficiency virus (14)
	Escherichia coli K-12 (6)
	Human immunodeficiency virus 1 (5)
	Streptomyces hygroscopicus subsp. hygroscopicus (4)
	Streptomyces venezuelae (4)
	Homo sapiens (3)
	Micromonospora carbonacea (3)
	Methylococcus capsulatus str. Bath (1)
	Streptomyces viridochromogenes Tue57 (1)
	Synechococcus elongatus PCC 7942 = FACHB-805 (1)

Taxonomy

	Bacteria (20)
	Riboviria (19)
	Eukaryota (3)

Experimental Method

	X-RAY DIFFRACTION (42)
	SOLUTION NMR (7)

Polymer Entity Type

	Protein (42)
	DNA (7)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (24)
	2.0 - 2.5 (12)
	2.5 - 3.0 (3)
	3.0 - 3.5 (2)

Release Date

	1995 - 1999 (4)
	2005 - 2009 (6)
	2010 - 2014 (28)
	2015 - 2019 (9)
	2020 - 2024 (2)

Enzyme Classification Name

	Transferases (15)
	Oxidoreductases (5)
	Hydrolases (1)

Membrane Protein Annotation

	OPM (3)
	MemProtMD (2)
	PDBTM (2)
	mpstruc (1)

Symmetry Type

	Cyclic (27)
	Asymmetric (12)
	Dihedral (6)

SCOP Classification

	Alpha and beta proteins (a/b) (23)
	All alpha proteins (4)

AllSelected

1 to 25 of 49 Structures

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1CQO \| pdb_00001cqo	Download File View File

NMR STRUCTURE OF THE PALINDROMIC DNA DECAMER D(GCGTTAACGC)2

Smith, J.A., Tsui, V.T., Chazin, W.J., Case, D.A.

To be published

Released	1999-08-23
Method	SOLUTION NMR
Macromolecule	5'-d(GPCPGPTPTPAPAPCPGPC)-3' (nucleic acid)

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1DSA \| pdb_00001dsa	Download File View File

(+)-DUOCARMYCIN SA COVALENTLY LINKED TO DUPLEX DNA, NMR, 20 STRUCTURES

Eis, P.S., Smith, J.A., Case, D.A., Chazin, W.J.

(1997) J Mol Biology 272: 237-252

Released	1997-08-20
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(GPAPCPTPAPAPTPTPGPAPC)-3', 5'-D(GPTPCPAPAPTPTPAPGPTPC)-3') (nucleic acid)
Unique Ligands	DSA

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1DSI \| pdb_00001dsi	Download File View File

Solution structure of a duocarmycin sa-indole-alkylated dna dupleX

Schnell, J.R., Ketchem, R.R., Boger, D.L., Chazin, W.J.

(1999) J Am Chem Soc 121: 5645-5652

Released	1998-08-05
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(GPAPCPTPAPAPTPTPGPAPC)-3') (nucleic acid) DNA (5'-D(GPTPCPAPAPTPTPAPGPTPC)-3') (nucleic acid)
Unique Ligands	DSI

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1DSM \| pdb_00001dsm	Download File View File

(-)-duocarmycin SA covalently linked to duplex DNA

Smith, J.A., Case, D.A., Chazin, W.J.

(2000) J Mol Biology 300: 1195-1204

Released	1999-04-02
Method	SOLUTION NMR
Macromolecule	5'-D(GPAPCPTPAPAPTPTPGPAPC)-3' (nucleic acid) 5'-D(GPTPCPAPAPTPTPAPGPTPC)-3' (nucleic acid)
Unique Ligands	DSA

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2BVJ \| pdb_00002bvj	Download File View File

Ligand-free structure of cytochrome P450 PikC (CYP107L1)

Sherman, D.H., Li, S., Yermalitskaya, L.V., Kim, Y., Smith, J.A., Waterman, M.R., Podust, L.M.

(2006) J Biological Chem 281: 26289

Released	2006-07-03
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Streptomyces venezuelae
Macromolecule	CYTOCHROME P450 MONOOXYGENASE (protein)
Unique Ligands	BME, DTT, HEM

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2C6H \| pdb_00002c6h	Download File View File

Crystal structure of YC-17-bound cytochrome P450 PikC (CYP107L1)

Sherman, D.H., Li, S., Yermalitskaya, L.V., Kim, Y., Smith, J.A., Waterman, M.R., Podust, L.M.

(2006) J Biological Chem 281: 26289

Released	2006-07-03
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Streptomyces venezuelae
Macromolecule	CYTOCHROME P450 MONOOXYGENASE (protein)
Unique Ligands	HEM, PXI, SO4

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2C7X \| pdb_00002c7x	Download File View File

Crystal structure of narbomycin-bound cytochrome P450 PikC (CYP107L1)

Sherman, D.H., Li, S., Yermalitskaya, L.V., Kim, Y., Smith, J.A., Waterman, M.R., Podust, L.M.

(2006) J Biological Chem 281: 26289

Released	2006-07-03
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Streptomyces venezuelae
Macromolecule	CYTOCHROME P450 MONOOXYGENASE (protein)
Unique Ligands	HEM, NRB

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2CD8 \| pdb_00002cd8	Download File View File

Crystal structure of YC-17-bound cytochrome P450 PikC (CYP107L1)

Yermalitskaya, L.I., Kim, Y., Sherman, D.H., Waterman, M.R., Podust, L.M.

(2006) J Biological Chem 281: 26289

Released	2007-02-20
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Streptomyces venezuelae
Macromolecule	CYTOCHROME P450 MONOOXYGENASE (protein)
Unique Ligands	HEM, PXI

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2K21 \| pdb_00002k21	Download File View File

NMR structure of human KCNE1 in LMPG micelles at pH 6.0 and 40 degree C

Kang, C., Tian, C., Sonnichsen, F.D., Smith, J.A., Meiler, J., George, A.L., Vanoye, C.G., Sanders, C.R., Kim, H.

(2008) Biochemistry 47: 7999-8006

Released	2008-12-09
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Potassium voltage-gated channel subfamily E member (protein)

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3GOM \| pdb_00003gom	Download File View File

Barium bound to the Holliday junction sequence d(TCGGCGCCGA)4

Naseer, A., Cardin, C.J.

(2011) Proc Natl Acad Sci U S A 108: 17610-17614

Released	2009-04-07
Method	X-RAY DIFFRACTION 2.3 Å
Macromolecule	5'-D(TPCPGPGPCPGPCPCPGPA)-3' (nucleic acid)
Unique Ligands	BA

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3NF6 \| pdb_00003nf6	Download File View File

Structural basis for a new mechanism of inhibition of HIV integrase identified by fragment screening and structure based design

Peat, T.S., Newman, J., Deadman, J.J., Rhodes, D.

(2011) Antivir Chem Chemother 21: 155-168

Released	2011-04-27
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	Integrase (protein)
Unique Ligands	ACY, CL, EDO, IMV, SO4

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3NF7 \| pdb_00003nf7	Download File View File

Structural basis for a new mechanism of inhibition of HIV integrase identified by fragment screening and structure based design

Peat, T.S., Newman, J., Deadman, J.J., Rhodes, D.

(2011) Antivir Chem Chemother 21: 155-168

Released	2011-04-27
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	Integrase (protein)
Unique Ligands	ACY, CIW, EDO, SO4

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3NF8 \| pdb_00003nf8	Download File View File

Structural basis for a new mechanism of inhibition of HIV integrase identified by fragment screening and structure based design

Peat, T.S., Newman, J., Deadman, J.J., Rhodes, D.

(2011) Antivir Chem Chemother 21: 155-168

Released	2011-04-27
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	Integrase (protein)
Unique Ligands	ACY, CDQ, SO4

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3NF9 \| pdb_00003nf9	Download File View File

Structural basis for a new mechanism of inhibition of HIV integrase identified by fragment screening and structure based design

Peat, T.S., Newman, J., Deadman, J.J., Rhodes, D.

(2011) Antivir Chem Chemother 21: 155-168

Released	2011-04-27
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	Integrase (protein)
Unique Ligands	ACY, CD9, EDO, SO4

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3NFA \| pdb_00003nfa	Download File View File

Structural basis for a new mechanism of inhibition of HIV integrase identified by fragment screening and structure based design

Peat, T.S., Newman, J., Deadman, J.J., Rhodes, D.

(2011) Antivir Chem Chemother 21: 155-168

Released	2011-04-27
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	Integrase (protein)
Unique Ligands	ACY, CBJ, SO4

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3QF8 \| pdb_00003qf8	Download File View File

X-ray crystal structure of the ruthenium complex [Ru(tap)2(dppz)]2+ bound to d(TCGGCGCCGA) at medium resolution

Cardin, C.J., Hall, J.P.

(2011) Proc Natl Acad Sci U S A 108: 17610-17614

Released	2011-10-19
Method	X-RAY DIFFRACTION 1.73 Å
Macromolecule	5'-D(TPCPGPGPCPGPCPCPGPA)-3' (nucleic acid)
Unique Ligands	BA, RKL

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3QRN \| pdb_00003qrn	Download File View File

X-ray crystal structure of the ruthenium complex [Ru(tap)2(dppz)]2+ bound to d(TCGGCGCCGA)at high resolution

Cardin, C.J., Hall, J.P.

(2011) Proc Natl Acad Sci U S A 108: 17610-17614

Released	2011-10-19
Method	X-RAY DIFFRACTION 1.1 Å
Macromolecule	5'-D(TPCPGPGPCPGPCPCPGPA)-3' (nucleic acid)
Unique Ligands	BA, RKL

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3ZCM \| pdb_00003zcm	Download File View File

Small molecule inhibitors of the LEDGF site of HIV integrase identified by fragment screening and structure based design.

Peat, T.S.

(2012) PLoS One 7: 40147

Released	2012-12-05
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Human immunodeficiency virus
Macromolecule	HIV INTEGRASE (protein)
Unique Ligands	ACT, GOL, PX3, SO4

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3ZSO \| pdb_00003zso	Download File View File

Small molecule inhibitors of the LEDGF site of HIV type 1 integrase identified by fragment screening and structure based design

Peat, T.S., Newman, J., Rhodes, D.I., Deadman, J.J., Vandergraaff, N., Le, G., Jones, E.D., Smith, J.A., Coates, J.A.V., Thienthong, N., Dolezal, O., Ryan, J.H., Savage, G.P., Francis, C.L.

(2012) PLoS One 7: 40147

Released	2012-07-11
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Human immunodeficiency virus
Macromolecule	INTEGRASE (protein)
Unique Ligands	ACY, NA, O2N, SO4

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3ZSQ \| pdb_00003zsq	Download File View File

Small molecule inhibitors of the LEDGF site of HIV type 1 integrase identified by fragment screening and structure based drug design

Peat, T.S., Newman, J., Rhodes, D.I., Vandergraaff, N., Le, G., Jones, E.D., Smith, J.A., Coates, J.A.V., Thienthong, N., Dolezal, O., Ryan, J.H., Savage, G.P., Francis, C.L., Deadman, J.J.

(2012) PLoS One 7: 40147

Released	2012-07-11
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Human immunodeficiency virus
Macromolecule	INTEGRASE (protein)
Unique Ligands	ACY, GOL, O4N, SO4

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3ZSR \| pdb_00003zsr	Download File View File

Small molecule inhibitors of the LEDGF site of HIV type 1 integrase identified by fragment screening and structure based drug design

Peat, T.S., Newman, J., Rhodes, D.I., Vandergraaff, N., Le, G., Jones, E.D., Smith, J.A., Coates, J.A.V., Thienthong, N., Dolezal, O., Ryan, J.H., Savage, G.P., Francis, C.L., Deadman, J.J.

(2012) PLoS One 7: 40147

Released	2012-07-11
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Human immunodeficiency virus
Macromolecule	INTEGRASE (protein)
Unique Ligands	CL, GOL, O3N, SO4

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3ZSV \| pdb_00003zsv	Download File View File

Small molecule inhibitors of the LEDGF site of HIV type 1 integrase identified by fragment screening and structure based drug design

Peat, T.S., Newman, J., Rhodes, D.I., Vandergraaff, N., Le, G., Jones, E.D., Smith, J.A., Coates, J.A.V., Thienthong, N., Dolezal, O., Ryan, J.H., Savage, G.P., Francis, C.L., Deadman, J.J.

(2012) PLoS One 7: 40147

Released	2012-07-11
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Human immunodeficiency virus
Macromolecule	INTEGRASE (protein)
Unique Ligands	ACY, EDO, GOL, SO4, ZSV

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3ZSW \| pdb_00003zsw	Download File View File

Small molecule inhibitors of the LEDGF site of HIV type 1 integrase identified by fragment screening and structure based drug design

Peat, T.S., Newman, J., Rhodes, D.I., Vandergraaff, N., Le, G., Jones, E.D., Smith, J.A., Coates, J.A.V., Thienthong, N., Dolezal, O., Ryan, J.H., Savage, G.P., Francis, C.L., Deadman, J.J.

(2012) PLoS One 7: 40147

Released	2012-07-11
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Human immunodeficiency virus
Macromolecule	INTEGRASE (protein)
Unique Ligands	ACY, CL, GOL, SO4, THR, ZSW

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3ZSX \| pdb_00003zsx	Download File View File

Small molecule inhibitors of the LEDGF site of HIV type 1 integrase identified by fragment screening and structure based drug design

Peat, T.S., Newman, J., Rhodes, D.I., Vandergraaff, N., Le, G., Jones, E.D., Smith, J.A., Coates, J.A.V., Thienthong, N., Dolezal, O., Ryan, J.H., Savage, G.P., Francis, C.L., Deadman, J.J.

(2012) PLoS One 7: 40147

Released	2012-07-11
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Human immunodeficiency virus
Macromolecule	INTEGRASE (protein)
Unique Ligands	ACT, EDO, GOL, N44, SO4