PDB: 48855 resultsInfo pagesStatus searchChemie searchBIRD

---

5L2G	Solution Structure of a DNA Dodecamer with 5-methylcytosine at the 9th Position Descriptor: DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(5CM)P*GP*CP*G)-3') Authors: Miears, H.L, Hoppins, J.J, Gruber, D.R, Kasymov, R.D, Johnson, E.C, Zharkov, D.O, Smirnov, S.L. Deposit date: 2016-08-01 Release date: 2016-12-21 Last modified: 2024-05-01 Method: SOLUTION NMR Cite: Oxidative damage to epigenetically methylated sites affects DNA stability, dynamics and enzymatic demethylation. Nucleic Acids Res., 46, 2018
4E2I	The Complex Structure of the SV40 Helicase Large T Antigen and p68 Subunit of DNA Polymerase Alpha-Primase Descriptor: DNA polymerase alpha subunit B, Large T antigen, ZINC ION Authors: Zhou, B, Arnett, D.R, Yu, X, Brewster, A, Sowd, G.A, Xie, C.L, Vila, S, Gai, D, Fanning, E, Chen, X.S. Deposit date: 2012-03-08 Release date: 2012-06-13 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (5 Å) Cite: Structural basis for the interaction of a hexameric replicative helicase with the regulatory subunit of human DNA polymerase alpha-primase. J.Biol.Chem., 287, 2012
6IJV	Solution NMR structure of a 14-mer dsDNA complexed with a novel NIR fluorescent probe QCy-DT Descriptor: 2,2'-{(4-hydroxy-1,3-phenylene)di[(E)ethene-2,1-diyl]}bis(3-methyl-1,3-benzothiazol-3-ium), DNA (5'-D(*CP*GP*CP*GP*AP*AP*AP*TP*TP*TP*CP*GP*CP*G)-3') Authors: Basu, G, Ganguly, S. Deposit date: 2018-10-12 Release date: 2019-03-06 Last modified: 2024-05-15 Method: SOLUTION NMR Cite: DNA Minor Groove-Induced cis - trans Isomerization of a Near-Infrared Fluorescent Probe. Biochemistry, 2021
6IJW	SOLUTION NMR STRUCTURE OF A DODECAMERIC dsDNA COMPLEXED WITH A NIR FLUORESCENT PROBE QCy-DT Descriptor: 2,2'-{(4-hydroxy-1,3-phenylene)di[(E)ethene-2,1-diyl]}bis(3-methyl-1,3-benzothiazol-3-ium), DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3') Authors: Ganguly, S, Basu, G. Deposit date: 2018-10-12 Release date: 2019-03-13 Last modified: 2024-05-15 Method: SOLUTION NMR Cite: DNA Minor Groove-Induced cis - trans Isomerization of a Near-Infrared Fluorescent Probe. Biochemistry, 2021
6DBL	Cryo-EM structure of RAG in complex with 12-RSS and 23-RSS substrate DNAs Descriptor: CALCIUM ION, Molecule name: Forward strand of 12-RSS substrate DNA, Molecule name: Forward strand of 23-RSS substrate DNA, ... Authors: Wu, H, Liao, M, Ru, H, Mi, W. Deposit date: 2018-05-03 Release date: 2018-08-01 Last modified: 2024-11-06 Method: ELECTRON MICROSCOPY (5 Å) Cite: DNA melting initiates the RAG catalytic pathway. Nat. Struct. Mol. Biol., 25, 2018
6DBQ	Cryo-EM structure of RAG in complex with 12-RSS and 23-RSS substrate DNAs Descriptor: CALCIUM ION, Molecule name: Forward strand of 12-RSS substrate DNA, Molecule name: Forward strand of 23-RSS substrate DNA, ... Authors: Wu, H, Liao, M, Ru, H, Mi, W. Deposit date: 2018-05-03 Release date: 2018-08-01 Last modified: 2024-03-13 Method: ELECTRON MICROSCOPY (4.22 Å) Cite: DNA melting initiates the RAG catalytic pathway. Nat. Struct. Mol. Biol., 25, 2018
441D	HIGH RESOLUTION A-DNA CRYSTAL STRYCTURES OF D(AGGGGCCCCT): AN A-DNA MODEL OF POLY(DG).POLY(DC) Descriptor: DNA (5'-D(*AP*GP*GP*GP*GP*CP*CP*CP*CP*T)-3') Authors: Gao, Y.G, Robinson, H.H, Wang, A.H. Deposit date: 1999-01-13 Release date: 1999-01-15 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (1.5 Å) Cite: High-resolution A-DNA crystal structures of d(AGGGGCCCCT). An A-DNA model of poly(dG) x poly(dC). Eur.J.Biochem., 261, 1999
3PVP	Structure of Mycobacterium tuberculosis DnaA-DBD in complex with box2 DNA Descriptor: Chromosomal replication initiator protein dnaA, DNA (5'-D(*CP*GP*TP*TP*AP*TP*CP*CP*AP*CP*AP*AP*C)-3'), DNA (5'-D(*GP*TP*TP*GP*TP*GP*GP*AP*TP*AP*AP*CP*G)-3') Authors: Tsodikov, O.V, Biswas, T. Deposit date: 2010-12-07 Release date: 2011-05-25 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Structural and Thermodynamic Signatures of DNA Recognition by Mycobacterium tuberculosis DnaA. J.Mol.Biol., 410, 2011
440D	HIGH RESOLUTION A-DNA CRYSTAL STRYCTURES OF D(AGGGGCCCCT): AN A-DNA MODEL OF POLY(DG).POLY(DC) Descriptor: DNA (5'-D(*AP*GP*GP*GP*GP*CP*CP*CP*CP*T)-3') Authors: Gao, Y.-G, Robinson, H.H, Wang, A.H.-J. Deposit date: 1999-01-13 Release date: 1999-01-15 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (1.1 Å) Cite: High-resolution A-DNA crystal structures of d(AGGGGCCCCT). An A-DNA model of poly(dG) x poly(dC). Eur.J.Biochem., 261, 1999
6DBT	Cryo-EM structure of RAG in complex with 12-RSS and 23-RSS substrate DNAs Descriptor: CALCIUM ION, Forward strand of 12-RSS substrate DNA, Forward strand of 23-RSS substrate DNA, ... Authors: Wu, H, Liao, M, Ru, H, Mi, W. Deposit date: 2018-05-03 Release date: 2018-08-01 Last modified: 2024-03-13 Method: ELECTRON MICROSCOPY (4.3 Å) Cite: DNA melting initiates the RAG catalytic pathway. Nat. Struct. Mol. Biol., 25, 2018
6DBV	Cryo-EM structure of RAG in complex with 12-RSS and 23-RSS substrate DNAs Descriptor: CALCIUM ION, Forward strand of 12-RSS substrate DNA, Forward strand of 23-RSS substrate DNA, ... Authors: Wu, H, Liao, M, Ru, H, Mi, W. Deposit date: 2018-05-03 Release date: 2018-08-01 Last modified: 2024-11-06 Method: ELECTRON MICROSCOPY (4.29 Å) Cite: DNA melting initiates the RAG catalytic pathway. Nat. Struct. Mol. Biol., 25, 2018
6EN2	Structure of the Tn1549 transposon Integrase (aa 82-397, R225K) in complex with a circular intermediate DNA (CI6b-DNA) Descriptor: DI(HYDROXYETHYL)ETHER, DNA (45-MER), Int protein Authors: Rubio-Cosials, A, Barabas, O. Deposit date: 2017-10-04 Release date: 2018-04-04 Last modified: 2024-01-17 Method: X-RAY DIFFRACTION (2.67 Å) Cite: Transposase-DNA Complex Structures Reveal Mechanisms for Conjugative Transposition of Antibiotic Resistance. Cell, 173, 2018
4GS2	DNA Holliday junction stabilized by iodine halogen bond. I1J construct in related reference. Descriptor: DNA (5'-D(*CP*CP*GP*AP*TP*AP*CP*CP*GP*G)-3'), DNA (5'-D(*CP*CP*GP*GP*TP*AP*(5IU)P*CP*GP*G)-3') Authors: Ho, P.S, Carter, M. Deposit date: 2012-08-27 Release date: 2013-07-31 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (1.9 Å) Cite: Enthalpy-entropy compensation in biomolecular halogen bonds measured in DNA junctions. Biochemistry, 52, 2013
7CC9	Sulfur binding domain of SprMcrA complexed with phosphorothioated DNA Descriptor: ACETATE ION, DNA (5'-D(*GP*GP*CP*GP*GS*CP*CP*C)-3'), DNA (5'-D(*GP*GP*GP*CP*CP*GP*CP*C)-3'), ... Authors: Yu, H, Zhao, G, Gan, J, Liu, G, Wu, G, He, X. Deposit date: 2020-06-16 Release date: 2020-07-08 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (2.063 Å) Cite: DNA backbone interactions impact the sequence specificity of DNA sulfur-binding domains: revelations from structural analyses. Nucleic Acids Res., 48, 2020
4GRE	DNA holliday junction stabilized by iodine halogen bond. I2J Construct of related reference Descriptor: DNA (5'-D(*CP*CP*GP*AP*TP*AP*CP*CP*GP*G)-3'), DNA (5'-D(*CP*CP*GP*GP*TP*AP*(IOU)P*CP*GP*G)-3') Authors: Ho, P.S, Carter, M. Deposit date: 2012-08-24 Release date: 2013-07-31 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (1.7 Å) Cite: Enthalpy-entropy compensation in biomolecular halogen bonds measured in DNA junctions. Biochemistry, 52, 2013
2UUG	ESCHERICHIA COLI URACIL-DNA GLYCOSYLASE:INHIBITOR COMPLEX WITH H187D MUTANT UDG AND WILD-TYPE UGI Descriptor: URACIL-DNA GLYCOSYLASE, URACIL-DNA GLYCOSYLASE INHIBITOR Authors: Putnam, C.D, Arvai, A.S, Mol, C.D, Tainer, J.A. Deposit date: 1998-10-31 Release date: 1999-03-25 Last modified: 2024-04-03 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Protein mimicry of DNA from crystal structures of the uracil-DNA glycosylase inhibitor protein and its complex with Escherichia coli uracil-DNA glycosylase J.Mol.Biol., 287, 1999
8OYR	DNA Major Groove Binding by lambda-[Ru(phen)2(phi)]2+ Descriptor: DNA (5'-D(*CP*CP*GP*GP*TP*AP*CP*CP*GP*G)-3'), STRONTIUM ION, ruthenium polypyridyl complex (lambda enantiomer) Authors: Prieto-Otoya, T.D, Cardin, C.J, McQuaid, K.T, Paterson, N.G. Deposit date: 2023-05-05 Release date: 2024-03-13 Last modified: 2024-03-27 Method: X-RAY DIFFRACTION (2.21 Å) Cite: Probing a Major DNA Weakness: Resolving the Groove and Sequence Selectivity of the Diimine Complex Lambda-[Ru(phen) 2 phi] 2. Angew.Chem.Int.Ed.Engl., 63, 2024
6DGD	PriA helicase bound to dsDNA of a DNA replication fork Descriptor: DNA (5'-D(P*AP*GP*CP*AP*CP*GP*CP*CP*GP*AP*CP*T)-3'), DNA (5'-D(P*GP*AP*GP*CP*AP*CP*GP*CP*CP*GP*AP*CP*T)-3'), DNA (5'-D(P*GP*TP*CP*GP*GP*CP*GP*TP*GP*CP*TP*C)-3'), ... Authors: Satyshur, K.A, Windgassen, T.A, Keck, J.L. Deposit date: 2018-05-17 Release date: 2018-09-05 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (2.823 Å) Cite: Structure-specific DNA replication-fork recognition directs helicase and replication restart activities of the PriA helicase. Proc. Natl. Acad. Sci. U.S.A., 115, 2018
6DBU	Cryo-EM structure of RAG in complex with 12-RSS and 23-RSS substrate DNAs Descriptor: CALCIUM ION, Forward strand RSS substrate DNA, Recombination activating gene 1 - MBP chimera, ... Authors: Wu, H, Liao, M, Ru, H, Mi, W. Deposit date: 2018-05-03 Release date: 2018-08-01 Last modified: 2024-03-13 Method: ELECTRON MICROSCOPY (3.9 Å) Cite: DNA melting initiates the RAG catalytic pathway. Nat. Struct. Mol. Biol., 25, 2018
3PVV	Structure of Mycobacterium tuberculosis DnaA-DBD in complex with box1 DNA Descriptor: Chromosomal replication initiator protein dnaA, DNA (5'-D(*CP*GP*TP*TP*GP*TP*CP*CP*AP*CP*AP*AP*C)-3'), DNA (5'-D(*GP*TP*TP*GP*TP*GP*GP*AP*CP*AP*AP*CP*G)-3') Authors: Tsodikov, O.V, Biswas, T. Deposit date: 2010-12-07 Release date: 2011-05-25 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (2 Å) Cite: Structural and Thermodynamic Signatures of DNA Recognition by Mycobacterium tuberculosis DnaA. J.Mol.Biol., 410, 2011
6AQV	Crystal Structure of Z-DNA with 6-fold Twinning_Z3B Descriptor: DNA (5'-D(*CP*GP*CP*GP*CP*G)-3') Authors: Luo, Z, Dauter, Z, Gilski, M. Deposit date: 2017-08-21 Release date: 2017-08-30 Last modified: 2023-10-04 Method: X-RAY DIFFRACTION (1.3 Å) Cite: Four highly pseudosymmetric and/or twinned structures of d(CGCGCG)2 extend the repertoire of crystal structures of Z-DNA. Acta Crystallogr D Struct Biol, 73, 2017
6AQT	Crystal Structure of Z-DNA with 6-fold Twinning_Z3A Descriptor: DNA (5'-D(*CP*GP*CP*GP*CP*G)-3') Authors: Luo, Z, Dauter, Z, Gilski, M. Deposit date: 2017-08-21 Release date: 2017-08-30 Last modified: 2023-10-04 Method: X-RAY DIFFRACTION (1.05 Å) Cite: Four highly pseudosymmetric and/or twinned structures of d(CGCGCG)2 extend the repertoire of crystal structures of Z-DNA. Acta Crystallogr D Struct Biol, 73, 2017
6AQW	Crystal Structure of Z-DNA with 6-fold Twinning_Z4A Descriptor: DNA (5'-D(*CP*GP*CP*GP*CP*G)-3') Authors: Luo, Z, Dauter, Z, Gilski, M. Deposit date: 2017-08-21 Release date: 2017-08-30 Last modified: 2023-10-04 Method: X-RAY DIFFRACTION (1.3 Å) Cite: Four highly pseudosymmetric and/or twinned structures of d(CGCGCG)2 extend the repertoire of crystal structures of Z-DNA. Acta Crystallogr D Struct Biol, 73, 2017
6BWY	DNA substrate selection by APOBEC3G Descriptor: DNA (30-MER), PHOSPHATE ION, Protection of telomeres protein 1, ... Authors: Ziegler, S.J, Buzovetsky, O. Deposit date: 2017-12-15 Release date: 2018-04-18 Last modified: 2023-10-04 Method: X-RAY DIFFRACTION (2.9 Å) Cite: Insights into DNA substrate selection by APOBEC3G from structural, biochemical, and functional studies. PLoS ONE, 13, 2018
6AQX	Crystal Structure of Z-DNA with 6-fold Twinning_Z4B Descriptor: DNA (5'-D(*CP*GP*CP*GP*CP*G)-3') Authors: Luo, Z, Dauter, Z, Gilski, M. Deposit date: 2017-08-21 Release date: 2017-08-30 Last modified: 2023-10-04 Method: X-RAY DIFFRACTION (1.55 Å) Cite: Four highly pseudosymmetric and/or twinned structures of d(CGCGCG)2 extend the repertoire of crystal structures of Z-DNA. Acta Crystallogr D Struct Biol, 73, 2017

<25262728293031323334353637383940>