RCSB PDB: Search

1MER	Download File View File

HIV-1 MUTANT (I84V) PROTEASE COMPLEXED WITH DMP450

(1997) Biochemistry 36: 1573-1580

Released	1998-04-15
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	HIV-1 PROTEASE (protein)
Unique Ligands	DMQ

1MES	Download File View File

HIV-1 MUTANT (I84V) PROTEASE COMPLEXED WITH DMP323

(1997) Biochemistry 36: 1573-1580

Released	1998-04-15
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	HIV-1 PROTEASE (protein)
Unique Ligands	DMP

1MET	Download File View File

HIV-1 MUTANT (V82F) PROTEASE COMPLEXED WITH DMP323

(1997) Biochemistry 36: 1573-1580

Released	1998-04-15
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	HIV-1 PROTEASE (protein)
Unique Ligands	DMP

1MEU	Download File View File

HIV-1 MUTANT (V82F, I84V) PROTEASE COMPLEXED WITH DMP323

(1997) Biochemistry 36: 1573-1580

Released	1998-04-15
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Human immunodeficiency virus 1
Macromolecule	HIV-1 PROTEASE (protein)
Unique Ligands	DMP

1U6N	Download File View File

Solution Structure of an Oligodeoxynucleotide Containing a Butadiene Derived N1 b-Hydroxyalkyl Adduct on Deoxyinosine in the Human N-ras Codon 61 Sequence

Scholdberg, T.A., Merritt, W.K., Dean, S.M., Kowalcyzk, A., Harris, T.M., Harris, C.M., Lloyd, R.S., Stone, M.P.

(2005) Biochemistry 44: 3327-3337

Released	2004-08-10
Method	SOLUTION NMR
Macromolecule	5'-D(CPGPGPAPCP(2BD)PAPGPAPAPG)-3' (nucleic acid) 5'-D(CPTPTPCPTPTPGPTPCPCPG)-3' (nucleic acid)

2BQ3	Download File View File

DNA Adduct Bypass Polymerization by Sulfolobus solfataricus Dpo4. Analysis and Crystal Structures of Multiple Base-Pair Substitution and Frameshift Products with the Adduct 1,N2-Ethenoguanine

(2005) J Biol Chem 280: 29750

Released	2005-06-22
Method	X-RAY DIFFRACTION 2 Å
Organisms	Saccharolobus solfataricus P2
Macromolecule	DNA POLYMERASE IV (protein) 5'-D(GPGPGPGPGPAPAPGPGPAP TPTPCPA)-3' (nucleic acid) 5'-D(TPCPAPTPGNEPGPAPAPTPCPCP TPTPCPCPCPCPC)-3' (nucleic acid)
Unique Ligands	CA

2BQR	Download File View File

DNA Adduct Bypass Polymerization by Sulfolobus solfataricus Dpo4. Analysis and Crystal Structures of Multiple Base-Pair Substitution and Frameshift Products with the Adduct 1,N2-Ethenoguanine

(2005) J Biol Chem 280: 29750

Released	2005-06-23
Method	X-RAY DIFFRACTION 2.37 Å
Organisms	Saccharolobus solfataricus P2
Macromolecule	DNA POLYMERASE IV (protein) 5'-D(GPGPGPGPGPAPAPGPGPAP TPTPC)-3' (nucleic acid) 5'-D(TPCPAPTPGNEPGPAPAPTPCPCP TPTPCPCPCPCP*C)-3' (nucleic acid)
Unique Ligands	CA, DTP

2BQU	Download File View File

DNA Adduct Bypass Polymerization by Sulfolobus solfataricus Dpo4. Analysis and Crystal Structures of Multiple Base-Pair Substitution and Frameshift Products with the Adduct 1,N2-Ethenoguanine

(2005) J Biol Chem 280: 29750

Released	2005-06-23
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Saccharolobus solfataricus P2
Macromolecule	DNA POLYMERASE IV (protein) 5'-D(GPGPGPGPGPAPAPGPGPAP TPTPC)-3' (nucleic acid) 5'-D(TPCPAPTPGNEPGPAPAPTPCPCP TPTPCPCPCPCP*C)-3' (nucleic acid)
Unique Ligands	CA, DAD

2BR0	Download File View File

DNA Adduct Bypass Polymerization by Sulfolobus solfataricus Dpo4. Analysis and Crystal Structures of Multiple Base-Pair Substitution and Frameshift Products with the Adduct 1,N2-Ethenoguanine

(2005) J Biol Chem 280: 29750

Released	2005-06-23
Method	X-RAY DIFFRACTION 2.17 Å
Organisms	Saccharolobus solfataricus P2
Macromolecule	DNA POLYMERASE IV (protein) 5'-D(GPGPGPGPGPAPAPGPGPAP TPTPC)-3' (nucleic acid) 5'-D(TPCPAPCPGNEPGPAPAPTPCPCP TPTPCPCPCPCP*C)-3' (nucleic acid)
Unique Ligands	CA, DG

2HKB	Download File View File

NMR Structure of the B-DNA Dodecamer CTCGGCGCCATC

Wang, F., DeMuro, N.E., Elmquist, C.E., Stover, J.S., Rizzo, C.J., Stone, M.P.

(2006) J Am Chem Soc 128: 10085-10095

Released	2006-10-03
Method	SOLUTION NMR
Organisms	synthetic construct
Macromolecule	5'-D(CPTPCPGPGPCPGPCPCPAPTPC)-3' (nucleic acid) 5'-D(GPAPTPGPGPCPGPCPCPGPAPG)-3' (nucleic acid)

2HKC	Download File View File

NMR Structure of the IQ-modified Dodecamer CTCGGC[IQ]GCCATC

Wang, F., DeMuro, N.E., Elmquist, C.E., Stover, J.S., Rizzo, C.J., Stone, M.P.

(2006) J Am Chem Soc 128: 10085-10095

Released	2006-10-03
Method	SOLUTION NMR
Organisms	synthetic construct
Macromolecule	5'-D(CPTPCPGPGPCPGPCPCPAPTPC)-3' (nucleic acid) 5'-D(GPAPTPGPGPCPGPCPCPGPAPG)-3' (nucleic acid)
Unique Ligands	GIQ

2HLI	Download File View File

Solution structure of Crotonaldehyde-Derived N2-[3-Oxo-1(S)-methyl-propyl]-dG DNA Adduct in the 5'-CpG-3' Sequence

Cho, Y.-J., Wang, H., Kozekov, I.D., Kurtz, A.J., Jacob, J., Voehler, M., Smith, J., Harris, T.M., Rizzo, C.J., Stone, M.P.

(2006) Chem Res Toxicol 19: 1019-1029

Released	2006-09-19
Method	SOLUTION NMR
Macromolecule	DNA dodecamer (nucleic acid) DNA dodecamer with S-crotonaldehyde adduct (nucleic acid)

2HMD	Download File View File

Stereochemistry Modulates Stability of Reduced Inter-Strand Cross-Links Arising From R- and S-alpha-methyl-gamma-OH-1,N2-propano-2'-Deoxyguanine in the 5'-CpG-3' DNA Sequence

Cho, Y.-J., Kozekov, I.D., Harris, T.M., Rizzo, C.J., Stone, M.P.

(2007) Biochemistry 46: 2608-2621

Released	2007-03-13
Method	SOLUTION NMR
Macromolecule	DNA dodecamer with interstrand cross-link (nucleic acid)

2HMR	Download File View File

Solution structure of reduced interstrand cross-link arising from S-alpha-methyl-gamma-OH-1,N2-propano-2'-deoxyguanosine in the 5'-CpG-3' DNA sequence

Cho, Y.-J., Kozekov, I.D., Harris, T.M., Rizzo, C.J., Stone, M.P.

(2007) Biochemistry 46: 2608-2621

Released	2007-03-13
Method	SOLUTION NMR
Macromolecule	DNA dodecamer with interstrand cross-link (nucleic acid)

2K8T	Download File View File

Solution NMR structure of trans-4-hydroxynonenal derived dG adduct of (6R,8S,11R)-configuration opposite dC

Huang, H., Wang, H., Qi, N., Lloyd, R.S., Rizzo, C.J., Stone, M.P.

(2008) Biochemistry 47: 11457-11472

Released	2008-11-04
Method	SOLUTION NMR
Macromolecule	5'-D(DGPDCPDTPDAPDGPDCPDGPDAPDGPDTPDCPDC)-3' (nucleic acid) 5'-D(DGPDGPDAPDCPDTPDCPDGPDCPDTPDAPDGPDC)-3' (nucleic acid)
Unique Ligands	HNB

2K8U	Download File View File

Solution NMR structure of trans-4-hydroxynonenal derived dG adduct of (6S,8R,11S)-configuration matched with dC

Huang, H., Wang, H., Qi, N., Lloyd, R.S., Rizzo, C.J., Stone, M.P.

(2008) Biochemistry 47: 11457-11472

Released	2008-11-04
Method	SOLUTION NMR
Macromolecule	5'-D(DGPDCPDTPDAPDGPDCPDGPDAPDGPDTPDCPDC)-3' (nucleic acid) 5'-D(DGPDGPDAPDCPDTPDCPDGPDCPDTPDAPDGPDC)-3' (nucleic acid)
Unique Ligands	HNB

2KAR	Download File View File

HNE-dG adduct mismatched with dA in acidic solution

Huang, H., Wang, H., Lloyd, R.S., Rizzo, C.J., Stone, M.P.

(2009) Chem Res Toxicol 22: 187-200

Released	2009-05-26
Method	SOLUTION NMR
Macromolecule	5'-D(DGPDCPDTPDAPDGPDCPDGPDAPDGPDTPDCPDC)-3' (nucleic acid) 5'-D(DGPDGPDAPDCPDTPDAPDGPDCPDTPDAPDGPDC)-3' (nucleic acid)
Unique Ligands	HND

2KAS	Download File View File

HNE-dG adduct mismatched with dA in basic solution

Huang, H., Wang, H., Lloyd, R.S., Rizzo, C.J., Stone, M.P.

(2009) Chem Res Toxicol 22: 187-200

Released	2009-05-26
Method	SOLUTION NMR
Macromolecule	5'-D(DGPDCPDTPDAPDGPDCPDGPDAPDGPDTPDCPDC)-3' (nucleic acid) 5'-D(DGPDGPDAPDCPDTPDAPDGPDCPDTPDAPDGPDC)-3' (nucleic acid)
Unique Ligands	HND

2KTP	Download File View File

Structure of the 1,N2-ethenodeoxyguanosine lesion opposite a one-base deletion in duplex DNA

Shanmugam, G., Kozekov, I.D., Guengerich, P.F., Rizzo, C.J., Stone, M.P.

(2010) Biochemistry 49: 2615-2626

Released	2010-03-23
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(CPGPCPAPTP(GNE)PGPAPAPTPCPC)-3') (nucleic acid) DNA (5'-D(GPGPAPTPTPCPAPTPGPCP*G)-3') (nucleic acid)

2KV6	Download File View File

Tetrapeptide KWKK conjugated to oligonucleotide duplex by a trimethylene tether

Huang, H., Kozekov, I.D., Kozekova, A., Rizzo, C.J., McCullough, A., LLoyd, R.S., Stone, M.P.

(2010) Biochemistry 49: 6155-6164

Released	2010-07-21
Method	SOLUTION NMR
Macromolecule	KWKK Tetrapeptide (protein) 5'-D(GPCPTPAPGPCPGPAPGPTPCPC)-3' (nucleic acid) 5'-D(GPGPAPCPTPCPGPCPTPAPGPC)-3' (nucleic acid)

2LBI	Download File View File

N2-dG:N2-dG interstrand cross-link induced by trans-4-hydroxynonenal

Huang, H., Kozekov, I.D., Wang, H., Kozekova, A., Rizzo, C.J., Stone, M.P.

(2011) J Am Chem Soc 133: 16101-16110

Released	2012-04-04
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(GPCPTPAPGPCPGPAPGPTPCPC)-3') (nucleic acid) DNA (5'-D(GPGPAPCPTPCPGPCPTPAPGPC)-3') (nucleic acid)
Unique Ligands	HND

2LG2	Download File View File

Structure of the duplex containing HNE derived (6S,8R,11S) N2-dG cyclic hemiacetal when placed opposite dT

Huang, H., Wang, H., Kozekova, A., Lloyd, R.S., Rizzo, C.J., Stone, M.P.

To be published

Released	2012-08-01
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(GPCPTPAPGPCPGPAPGPTPCPC)-3') (nucleic acid) DNA (5'-D(GPGPAPCPTPTPGPCPTPAPGPC)-3') (nucleic acid)
Unique Ligands	2LE

2LG3	Download File View File

Structure of the duplex containing HNE derived (6S,8R,11S) gamma-HO-PdG when placed opposite dT

Huang, H., Wang, H., Kozekova, A., Lloyd, R.S., Rizzo, C.J., Stone, M.P.

To be published

Released	2012-08-01
Method	SOLUTION NMR
Macromolecule	DNA (5'-D(GPCPTPAPGPCPGPAPGPTPCPC)-3') (nucleic acid) DNA (5'-D(GPGPAPCPTPTPGPCPTPAPGPC)-3') (nucleic acid)
Unique Ligands	HND

2MAV	Download File View File

NMR Structure of N2-IQ-dG at the G3 position in the NarI recognition sequence

Stavros, K.M., Hawkins, E.K., Rizzo, C.J., Stone, M.P.

(2014) Nucleic Acids Res 42: 3450-3463

Released	2014-05-14
Method	SOLUTION NMR
Macromolecule	DNA_(5'-D(CPTPCPGPGPCPGPCPCPAPTPC)-3') (nucleic acid) DNA_(5'-D(GPAPTPGPGPCPGPCPCPGPAPG)-3') (nucleic acid)