-
1
-
-
78651083451
-
Mycobacteria exploit three genetically distinct DNA double-strand break repair pathways
-
Gupta, R., Barkan, D., Redelman-Sidi, G., Shuman, S. and Glickman, M. S. (2011) Mycobacteria exploit three genetically distinct DNA double-strand break repair pathways. Mol. Microbiol., 79, 316-330.
-
(2011)
Mol. Microbiol.
, vol.79
, pp. 316-330
-
-
Gupta, R.1
Barkan, D.2
Redelman-Sidi, G.3
Shuman, S.4
Glickman, M.S.5
-
2
-
-
35348890199
-
Bacterial DNA repair by non-homologous end joining
-
Shuman, S. and Glickman, M. S. (2007) Bacterial DNA repair by non-homologous end joining. Nat. Rev. Microbiol., 5, 852-861.
-
(2007)
Nat. Rev. Microbiol.
, vol.5
, pp. 852-861
-
-
Shuman, S.1
Glickman, M.S.2
-
3
-
-
39449129496
-
The pathways and outcomes of mycobacterial NHEJ depend on the structure of the broken DNA ends
-
Aniukwu, J., Glickman, M. S. and Shuman, S. (2008) The pathways and outcomes of mycobacterial NHEJ depend on the structure of the broken DNA ends. Genes Dev., 22, 512-527.
-
(2008)
Genes Dev.
, vol.22
, pp. 512-527
-
-
Aniukwu, J.1
Glickman, M.S.2
Shuman, S.3
-
4
-
-
33744964530
-
Crystal structure and nonhomologous end-joining function of the ligase component of Mycobacterium DNA ligase D
-
Akey, D., Martins, A., Aniukwu, J., Glickman, M. S., Shuman, S. and Berger, J. M. (2006) Crystal structure and nonhomologous end-joining function of the ligase component of Mycobacterium DNA ligase D. J. Biol. Chem., 281, 13412-13423.
-
(2006)
J. Biol. Chem.
, vol.281
, pp. 13412-13423
-
-
Akey, D.1
Martins, A.2
Aniukwu, J.3
Glickman, M.S.4
Shuman, S.5
Berger, J.M.6
-
5
-
-
2442717521
-
Biochemical and genetic analysis of the four DNA ligases of mycobacteria
-
Gong, C., Martins, A., Bongiorno, P., Glickman, M. and Shuman, S. (2004) Biochemical and genetic analysis of the four DNA ligases of mycobacteria. J. Biol. Chem., 279, 20594-20606.
-
(2004)
J. Biol. Chem.
, vol.279
, pp. 20594-20606
-
-
Gong, C.1
Martins, A.2
Bongiorno, P.3
Glickman, M.4
Shuman, S.5
-
6
-
-
32444451295
-
Atomic structure and nonhomologous end-joining function of the polymerase component of bacterial DNA ligase D
-
Zhu, H., Nandakumar, J., Aniukwu, J., Wang, L. K., Glickman, M. S., Lima, C. D. and Shuman, S. (2006) Atomic structure and nonhomologous end-joining function of the polymerase component of bacterial DNA ligase D. Proc. Natl Acad. Sci. USA, 103, 1711-1716.
-
(2006)
Proc. Natl Acad. Sci. USA
, vol.103
, pp. 1711-1716
-
-
Zhu, H.1
Nandakumar, J.2
Aniukwu, J.3
Wang, L.K.4
Glickman, M.S.5
Lima, C.D.6
Shuman, S.7
-
7
-
-
12844250647
-
A primer-dependent polymerase function of pseudomonas aeruginosa ATP-dependent DNA ligase (LigD)
-
Zhu, H. and Shuman, S. (2005) A primer-dependent polymerase function of pseudomonas aeruginosa ATP-dependent DNA ligase (LigD). J. Biol. Chem., 280, 418-427.
-
(2005)
J. Biol. Chem.
, vol.280
, pp. 418-427
-
-
Zhu, H.1
Shuman, S.2
-
8
-
-
77951187826
-
Gap filling activities of Pseudomonas DNA ligase D (LigD) polymerase and functional interactions of LigD with the DNA end-binding Ku protein
-
Zhu, H. and Shuman, S. (2010) Gap filling activities of Pseudomonas DNA ligase D (LigD) polymerase and functional interactions of LigD with the DNA end-binding Ku protein. J. Biol. Chem., 285, 4815-4825.
-
(2010)
J. Biol. Chem.
, vol.285
, pp. 4815-4825
-
-
Zhu, H.1
Shuman, S.2
-
9
-
-
35349028355
-
Structure of a NHEJ polymerase-mediated DNA synaptic complex
-
Brissett, N. C., Pitcher, R. S., Juarez, R., Picher, A. J., Green, A. J., Dafforn, T. R., Fox, G. C., Blanco, L. and Doherty, A. J. (2007) Structure of a NHEJ polymerase-mediated DNA synaptic complex. Science, 318, 456-459.
-
(2007)
Science
, vol.318
, pp. 456-459
-
-
Brissett, N.C.1
Pitcher, R.S.2
Juarez, R.3
Picher, A.J.4
Green, A.J.5
Dafforn, T.R.6
Fox, G.C.7
Blanco, L.8
Doherty, A.J.9
-
10
-
-
33846382667
-
Structure and function of a mycobacterial NHEJ DNA repair polymerase
-
Pitcher, R. S., Brissett, N. C., Picher, A. J., Andrade, P., Juarez, R., Thompson, D., Fox, G. C., Blanco, L. and Doherty, A. J. (2007) Structure and function of a mycobacterial NHEJ DNA repair polymerase. J. Mol. Biol., 366, 391-405.
-
(2007)
J. Mol. Biol.
, vol.366
, pp. 391-405
-
-
Pitcher, R.S.1
Brissett, N.C.2
Picher, A.J.3
Andrade, P.4
Juarez, R.5
Thompson, D.6
Fox, G.C.7
Blanco, L.8
Doherty, A.J.9
-
11
-
-
78651468718
-
Structure of a preternary complex involving a prokaryotic NHEJ DNA polymerase
-
Brissett, N. C., Martin, M. J., Pitcher, R. S., Bianchi, J., Juarez, R., Green, A. J., Fox, G. C., Blanco, L. and Doherty, A. J. (2011) Structure of a preternary complex involving a prokaryotic NHEJ DNA polymerase. Mol. Cell, 41, 221-231.
-
(2011)
Mol. Cell
, vol.41
, pp. 221-231
-
-
Brissett, N.C.1
Martin, M.J.2
Pitcher, R.S.3
Bianchi, J.4
Juarez, R.5
Green, A.J.6
Fox, G.C.7
Blanco, L.8
Doherty, A.J.9
-
12
-
-
22544469168
-
Novel 30-ribonuclease and 30-phosphatase activities of the bacterial non-homologous end-joining protein, DNA ligase D
-
Zhu, H. and Shuman, S. (2005) Novel 30-ribonuclease and 30-phosphatase activities of the bacterial non-homologous end-joining protein, DNA ligase D. J. Biol. Chem., 280, 25973-25981.
-
(2005)
J. Biol. Chem.
, vol.280
, pp. 25973-25981
-
-
Zhu, H.1
Shuman, S.2
-
13
-
-
33744929414
-
Substrate specificity and structure-function analysis of the 30-phosphoesterase component of the bacterial NHEJ protein,DNA ligase D
-
Zhu, H. and Shuman, S. (2006) Substrate specificity and structure-function analysis of the 30-phosphoesterase component of the bacterial NHEJ protein, DNA ligase D. J. Biol. Chem., 281, 13873-13881.
-
(2006)
J. Biol. Chem.
, vol.281
, pp. 13873-13881
-
-
Zhu, H.1
Shuman, S.2
-
14
-
-
34547134744
-
Characterization of Agrobacterium tumefaciens DNA ligases C and D
-
Zhu, H. and Shuman, S. (2007) Characterization of Agrobacterium tumefaciens DNA ligases C and D. Nucleic Acids Res., 35, 3631-3645.
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 3631-3645
-
-
Zhu, H.1
Shuman, S.2
-
15
-
-
43749100687
-
Bacterial nonhomologous end joining ligases preferentially seal breaks with a 30-OH monoribonucleotide
-
Zhu, H. and Shuman, S. (2008) Bacterial nonhomologous end joining ligases preferentially seal breaks with a 30-OH monoribonucleotide. J. Biol. Chem., 283, 8331-8339.
-
(2008)
J. Biol. Chem.
, vol.283
, pp. 8331-8339
-
-
Zhu, H.1
Shuman, S.2
-
16
-
-
26644442141
-
Essential constituents of the 30-phosphoesterase domain of bacterial DNA ligase D, a nonhomologous end-joining enzyme
-
Zhu, H., Wang, L. K. and Shuman, S. (2005) Essential constituents of the 30-phosphoesterase domain of bacterial DNA ligase D, a nonhomologous end-joining enzyme. J. Biol. Chem., 280, 33707-33715.
-
(2005)
J. Biol. Chem.
, vol.280
, pp. 33707-33715
-
-
Zhu, H.1
Wang, L.K.2
Shuman, S.3
-
17
-
-
77955590825
-
Structure of bacterial LigD 30-phosphoesterase unveils a DNA repair superfamily
-
Nair, P. A., Smith, P. and Shuman, S. (2010) Structure of bacterial LigD 30-phosphoesterase unveils a DNA repair superfamily. Proc. Natl Acad. Sci. USA, 107, 12822-12827.
-
(2010)
Proc. Natl Acad. Sci. USA
, vol.107
, pp. 12822-12827
-
-
Nair, P.A.1
Smith, P.2
Shuman, S.3
-
18
-
-
79955642028
-
Structures and activities of archaeal members of the LigD 30-phosphoesterase DNA repair enzyme superfamily
-
Smith, P., Nair, P. A., Das, U., Zhu, H. and Shuman, S. (2011) Structures and activities of archaeal members of the LigD 30-phosphoesterase DNA repair enzyme superfamily. Nucleic Acids Res., 39, 3310-3320.
-
(2011)
Nucleic Acids Res.
, vol.39
, pp. 3310-3320
-
-
Smith, P.1
Nair, P.A.2
Das, U.3
Zhu, H.4
Shuman, S.5
-
19
-
-
84855367980
-
Sequence-specific 1H, 13C and 15N assignments of the phosphoesterase (PE) domain of Pseudomonas aeruginosa DNA ligase D (LigD)
-
Dutta, K., Natarajan, A., Nair, P. A., Shuman, S. and Ghose, R. (2011) Sequence-specific 1H, 13C and 15N assignments of the phosphoesterase (PE) domain of Pseudomonas aeruginosa DNA ligase D (LigD). Biomol. NMR Assign., 5, 151-155.
-
(2011)
Biomol. NMR Assign.
, vol.5
, pp. 151-155
-
-
Dutta, K.1
Natarajan, A.2
Nair, P.A.3
Shuman, S.4
Ghose, R.5
-
20
-
-
0032506009
-
TROSY in triple-resonance experiments: New perspectives for sequential NMR assignment of large proteins
-
Salzmann, M., Pervushin, K., Wider, G., Senn, H. and Wuthrich, K. (1998) TROSY in triple-resonance experiments: new perspectives for sequential NMR assignment of large proteins. Proc. Natl Acad. Sci. USA, 95, 13585-13590.
-
(1998)
Proc. Natl Acad. Sci. USA
, vol.95
, pp. 13585-13590
-
-
Salzmann, M.1
Pervushin, K.2
Wider, G.3
Senn, H.4
Wuthrich, K.5
-
21
-
-
85013746467
-
-
2nd edn. Academic Press, San Diego
-
Cavanagh, J., Fairbrother, W. J., Palmer, A. G. III, Rance, M. and Skelton, N. J. (2007) Protein NMR Spectroscopy, 2nd edn. Academic Press, San Diego.
-
(2007)
Protein NMR Spectroscopy
-
-
Cavanagh, J.1
Fairbrother, W.J.2
Palmer Iii, A.G.3
Rance, M.4
Skelton, N.J.5
-
22
-
-
68349093958
-
TALOS+: A hybrid method for predicting protein backbone torsion angles from NMR chemical shifts
-
Shen, Y., Delaglio, F., Cornilescu, G. and Bax, A. (2009) TALOS+: a hybrid method for predicting protein backbone torsion angles from NMR chemical shifts. J. Biomol. NMR, 44, 213-223.
-
(2009)
J. Biomol. NMR
, vol.44
, pp. 213-223
-
-
Shen, Y.1
Delaglio, F.2
Cornilescu, G.3
Bax, A.4
-
23
-
-
4644259437
-
Using NMRView to visualize and analyze the NMR spectra of macromolecules
-
Johnson, B. A. (2004) Using NMRView to visualize and analyze the NMR spectra of macromolecules. Methods Mol. Biol., 278, 313-352.
-
(2004)
Methods Mol. Biol.
, vol.278
, pp. 313-352
-
-
Johnson, B.A.1
-
24
-
-
4644223325
-
NOE assignment with ARIA 2. 0: The nuts and bolts
-
Habeck, M., Rieping, W., Linge, J. P. and Nilges, M. (2004) NOE assignment with ARIA 2. 0: the nuts and bolts. Methods Mol. Biol., 278, 379-402.
-
(2004)
Methods Mol. Biol.
, vol.278
, pp. 379-402
-
-
Habeck, M.1
Rieping, W.2
Linge, J.P.3
Nilges, M.4
-
25
-
-
70149102207
-
Accurate sampling of high-frequency motions in proteins by steady-state 15N-{1H} nuclear Overhauser effect measurements in the presence of cross-correlated relaxation
-
Ferrage, F., Cowburn, D. and Ghose, R. (2009) Accurate sampling of high-frequency motions in proteins by steady-state 15N-{1H} nuclear Overhauser effect measurements in the presence of cross-correlated relaxation. J. Am. Chem. Soc., 131, 6048-6049.
-
(2009)
J. Am. Chem. Soc.
, vol.131
, pp. 6048-6049
-
-
Ferrage, F.1
Cowburn, D.2
Ghose, R.3
-
26
-
-
0037441524
-
Refinement of protein structures in explicit solvent
-
Linge, J. P., Williams, M. A., Spronk, C. A., Bonvin, A. M. and Nilges, M. (2003) Refinement of protein structures in explicit solvent. Proteins, 50, 496-506.
-
(2003)
Proteins
, vol.50
, pp. 496-506
-
-
Linge, J.P.1
Williams, M.A.2
Spronk, C.A.3
Bonvin, A.M.4
Nilges, M.5
-
27
-
-
0030339738
-
AQUA and PROCHECK-NMR: Programs for checking the quality of protein structures solved by NMR
-
Laskowski, R. A., Rullmannn, J. A., MacArthur, M. W., Kaptein, R. and Thornton, J. M. (1996) AQUA and PROCHECK-NMR: programs for checking the quality of protein structures solved by NMR. J. Biomol. NMR, 8, 477-486.
-
(1996)
J. Biomol. NMR
, vol.8
, pp. 477-486
-
-
Laskowski, R.A.1
Rullmannn, J.A.2
MacArthur, M.W.3
Kaptein, R.4
Thornton, J.M.5
-
28
-
-
0030039296
-
PROMOTIF-A program to identify and analyze structural motifs in proteins
-
Hutchinson, E. G. and Thornton, J. M. (1996) PROMOTIF-a program to identify and analyze structural motifs in proteins. Protein Sci., 5, 212-220.
-
(1996)
Protein Sci.
, vol.5
, pp. 212-220
-
-
Hutchinson, E.G.1
Thornton, J.M.2
-
29
-
-
0035175679
-
PDBsum: Summaries and analyses of PDB structures
-
Laskowski, R. A. (2001) PDBsum: summaries and analyses of PDB structures. Nucleic Acids Res., 29, 221-222.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 221-222
-
-
Laskowski, R.A.1
-
30
-
-
0024885851
-
ODRPACK software for weighted orthogonal distance regression
-
Boggs, P. T., Donaldson, J. R., Byrd, R. H. and Schnabel, R. B. (1989) ODRPACK software for weighted orthogonal distance regression. ACM Trans. Math. Software, 15, 348-364.
-
(1989)
ACM Trans. Math. Software
, vol.15
, pp. 348-364
-
-
Boggs, P.T.1
Donaldson, J.R.2
Byrd, R.H.3
Schnabel, R.B.4
-
31
-
-
80051673221
-
SHIFTX2: Significantly improved protein chemical shift prediction
-
Han, B., Liu, Y., Ginzinger, S. W. and Wishart, D. S. (2011) SHIFTX2: significantly improved protein chemical shift prediction. J. Biomol. NMR, 50, 43-57.
-
(2011)
J. Biomol. NMR
, vol.50
, pp. 43-57
-
-
Han, B.1
Liu, Y.2
Ginzinger, S.W.3
Wishart, D.S.4
-
32
-
-
4344648452
-
Residual dipolar couplings in structure determination of biomolecules
-
Prestegard, J. H., Bougault, C. M. and Kishore, A. I. (2004) Residual dipolar couplings in structure determination of biomolecules. Chem. Rev., 104, 3519-3540.
-
(2004)
Chem. Rev.
, vol.104
, pp. 3519-3540
-
-
Prestegard, J.H.1
Bougault, C.M.2
Kishore, A.I.3
-
33
-
-
0037039335
-
Mapping protein-protein interactions in solution by NMR spectroscopy
-
Zuiderweg, E. R. P. (2002) Mapping Protein-Protein Interactions in Solution by NMR Spectroscopy. Biochemistry, 41, 1-7.
-
(2002)
Biochemistry
, vol.41
, pp. 1-7
-
-
Zuiderweg, E.R.P.1
-
34
-
-
0015794613
-
Fluorescence and the location of tryptophan residues in protein molecules
-
Burstein, E. A., Vedenkina, N. S. and Ivkova, M. N. (1973) Fluorescence and the location of tryptophan residues in protein molecules. Photochem. Photobiol., 18, 263-279.
-
(1973)
Photochem. Photobiol.
, vol.18
, pp. 263-279
-
-
Burstein, E.A.1
Vedenkina, N.S.2
Ivkova, M.N.3
-
35
-
-
84863395749
-
Structural insights to the metal specificity of an archaeal member of the LigD 30-phosphoesterase DNA repair enzyme family
-
Press
-
Das, U., Smith, P. and Shuman, S. (2011) Structural insights to the metal specificity of an archaeal member of the LigD 30-phosphoesterase DNA repair enzyme family. Nucleic Acids Res. (in press).
-
(2011)
Nucleic Acids Res.
-
-
Das, U.1
Smith, P.2
Shuman, S.3
|