-
1
-
-
84905493192
-
End resection at double-strand breaks: Mechanism and regulation
-
L.S. Symington End resection at double-strand breaks: mechanism and regulation Cold Spring Harb. Perspect. Biol. 6 2014
-
(2014)
Cold Spring Harb. Perspect. Biol.
, vol.6
-
-
Symington, L.S.1
-
5
-
-
0028102267
-
Biochemistry of homologous recombination in Escherichia coli
-
S.C. Kowalczykowski, D.A. Dixon, A.K. Eggleston, S.D. Lauder, and W.M. Rehrauer Biochemistry of homologous recombination in Escherichia coli Microbiol. Rev. 58 1994 401 465
-
(1994)
Microbiol. Rev.
, vol.58
, pp. 401-465
-
-
Kowalczykowski, S.C.1
Dixon, D.A.2
Eggleston, A.K.3
Lauder, S.D.4
Rehrauer, W.M.5
-
6
-
-
84875364461
-
Early steps of double-strand break repair in Bacillus subtilis
-
J.C. Alonso, P.P. Cardenas, H. Sanchez, J. Hejna, Y. Suzuki, and K. Takeyasu Early steps of double-strand break repair in Bacillus subtilis DNA Repair (Amst.) 12 2013 162 176
-
(2013)
DNA Repair (Amst.)
, vol.12
, pp. 162-176
-
-
Alonso, J.C.1
Cardenas, P.P.2
Sanchez, H.3
Hejna, J.4
Suzuki, Y.5
Takeyasu, K.6
-
7
-
-
53649090109
-
DNA helicases Sgs1 and BLM promote DNA double-strand break resection
-
S. Gravel, J.R. Chapman, C. Magill, and S.P. Jackson DNA helicases Sgs1 and BLM promote DNA double-strand break resection Genes Dev. 22 2008 2767 2772
-
(2008)
Genes Dev.
, vol.22
, pp. 2767-2772
-
-
Gravel, S.1
Chapman, J.R.2
Magill, C.3
Jackson, S.P.4
-
8
-
-
53649104599
-
Sae2, Exo1 and Sgs1 collaborate in DNA double-strand break processing
-
E.P. Mimitou, and L.S. Symington Sae2, Exo1 and Sgs1 collaborate in DNA double-strand break processing Nature 455 2008 770 774
-
(2008)
Nature
, vol.455
, pp. 770-774
-
-
Mimitou, E.P.1
Symington, L.S.2
-
9
-
-
51549095956
-
Sgs1 helicase and two nucleases Dna2 and Exo1 resect DNA double-strand break ends
-
Z. Zhu, W.H. Chung, E.Y. Shim, S.E. Lee, and G. Ira Sgs1 helicase and two nucleases Dna2 and Exo1 resect DNA double-strand break ends Cell 134 2008 981 994
-
(2008)
Cell
, vol.134
, pp. 981-994
-
-
Zhu, Z.1
Chung, W.H.2
Shim, E.Y.3
Lee, S.E.4
Ira, G.5
-
10
-
-
0036305477
-
NurA, a novel 5′-3′ nuclease gene linked to rad50 and mre11 homologs of thermophilic archaea
-
F. Constantinesco, P. Forterre, and C. Elie NurA, a novel 5′-3′ nuclease gene linked to rad50 and mre11 homologs of thermophilic archaea EMBO Rep. 3 2002 537 542
-
(2002)
EMBO Rep.
, vol.3
, pp. 537-542
-
-
Constantinesco, F.1
Forterre, P.2
Elie, C.3
-
11
-
-
2442670846
-
A bipolar DNA helicase gene, herA, clusters with rad50, mre11 and nurA genes in thermophilic archaea
-
F. Constantinesco, P. Forterre, E.V. Koonin, L. Aravind, and C. Elie A bipolar DNA helicase gene, herA, clusters with rad50, mre11 and nurA genes in thermophilic archaea Nucleic Acids Res. 32 2004 1439 1447
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 1439-1447
-
-
Constantinesco, F.1
Forterre, P.2
Koonin, E.V.3
Aravind, L.4
Elie, C.5
-
12
-
-
1242343661
-
MlaA, a hexameric ATPase linked to the Mre11 complex in archaeal genomes
-
A. Manzan, G. Pfeiffer, M.L. Hefferin, C.E. Lang, J.P. Carney, and K.P. Hopfner MlaA, a hexameric ATPase linked to the Mre11 complex in archaeal genomes EMBO Rep. 5 2004 54 59
-
(2004)
EMBO Rep.
, vol.5
, pp. 54-59
-
-
Manzan, A.1
Pfeiffer, G.2
Hefferin, M.L.3
Lang, C.E.4
Carney, J.P.5
Hopfner, K.P.6
-
13
-
-
84863355807
-
Crystal structure of the NurA-dAMP-Mn2+ complex
-
J. Chae, Y.C. Kim, and Y. Cho Crystal structure of the NurA-dAMP-Mn2+ complex Nucleic Acids Res. 40 2012 2258 2270
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. 2258-2270
-
-
Chae, J.1
Kim, Y.C.2
Cho, Y.3
-
14
-
-
53549093050
-
The P. Furiosus mre11/rad50 complex promotes 5′ strand resection at a DNA double-strand break
-
B.B. Hopkins, and T.T. Paull The P. furiosus mre11/rad50 complex promotes 5′ strand resection at a DNA double-strand break Cell 135 2008 250 260
-
(2008)
Cell
, vol.135
, pp. 250-260
-
-
Hopkins, B.B.1
Paull, T.T.2
-
15
-
-
84860126885
-
Structural and functional insights into DNA-end processing by the archaeal HerA helicase-NurA nuclease complex
-
J.K. Blackwood, N.J. Rzechorzek, A.S. Abrams, J.D. Maman, L. Pellegrini, and N.P. Robinson Structural and functional insights into DNA-end processing by the archaeal HerA helicase-NurA nuclease complex Nucleic Acids Res. 40 2012 3183 3196
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. 3183-3196
-
-
Blackwood, J.K.1
Rzechorzek, N.J.2
Abrams, A.S.3
Maman, J.D.4
Pellegrini, L.5
Robinson, N.P.6
-
16
-
-
5144223072
-
Comparative genomics of the FtsK-HerA superfamily of pumping ATPases: Implications for the origins of chromosome segregation, cell division and viral capsid packaging
-
L.M. Iyer, K.S. Makarova, E.V. Koonin, and L. Aravind Comparative genomics of the FtsK-HerA superfamily of pumping ATPases: implications for the origins of chromosome segregation, cell division and viral capsid packaging Nucleic Acids Res. 32 2004 5260 5279
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 5260-5279
-
-
Iyer, L.M.1
Makarova, K.S.2
Koonin, E.V.3
Aravind, L.4
-
17
-
-
39149101784
-
Archaeal DNA helicase HerA interacts with Mre11 homologue and unwinds blunt-ended double-stranded DNA and recombination intermediates
-
S. Zhang, T. Wei, G. Hou, C. Zhang, P. Liang, J. Ni, D. Sheng, and Y. Shen Archaeal DNA helicase HerA interacts with Mre11 homologue and unwinds blunt-ended double-stranded DNA and recombination intermediates DNA Repair (Amst.) 7 2008 380 391
-
(2008)
DNA Repair (Amst.)
, vol.7
, pp. 380-391
-
-
Zhang, S.1
Wei, T.2
Hou, G.3
Zhang, C.4
Liang, P.5
Ni, J.6
Sheng, D.7
Shen, Y.8
-
18
-
-
84855818650
-
A Bayesian view on cryo-EM structure determination
-
S.H. Scheres A Bayesian view on cryo-EM structure determination J. Mol. Biol. 415 2012 406 418
-
(2012)
J. Mol. Biol.
, vol.415
, pp. 406-418
-
-
Scheres, S.H.1
-
19
-
-
84881432897
-
PRIME: Probabilistic initial 3D model generation for single-particle cryo-electron microscopy
-
H. Elmlund, D. Elmlund, and S. Bengio PRIME: probabilistic initial 3D model generation for single-particle cryo-electron microscopy Structure 21 2013 1299 1306
-
(2013)
Structure
, vol.21
, pp. 1299-1306
-
-
Elmlund, H.1
Elmlund, D.2
Bengio, S.3
-
20
-
-
84873123456
-
End-resection at DNA double-strand breaks in the three domains of life
-
J.K. Blackwood, N.J. Rzechorzek, S.M. Bray, J.D. Maman, L. Pellegrini, and N.P. Robinson End-resection at DNA double-strand breaks in the three domains of life Biochem. Soc. Trans. 41 2013 314 320
-
(2013)
Biochem. Soc. Trans.
, vol.41
, pp. 314-320
-
-
Blackwood, J.K.1
Rzechorzek, N.J.2
Bray, S.M.3
Maman, J.D.4
Pellegrini, L.5
Robinson, N.P.6
-
21
-
-
23144452044
-
The HHpred interactive server for protein homology detection and structure prediction
-
J. Soding, A. Biegert, and A.N. Lupas The HHpred interactive server for protein homology detection and structure prediction Nucleic Acids Res. 33 2005 W244 W248
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 244-W248
-
-
Soding, J.1
Biegert, A.2
Lupas, A.N.3
-
22
-
-
84863923408
-
Structure of the VirB4 ATPase, alone and bound to the core complex of a type IV secretion system
-
K. Wallden, R. Williams, J. Yan, P.W. Lian, L. Wang, K. Thalassinos, E.V. Orlova, and G. Waksman Structure of the VirB4 ATPase, alone and bound to the core complex of a type IV secretion system Proc. Natl. Acad. Sci. U.S.A. 109 2012 11348 11353
-
(2012)
Proc. Natl. Acad. Sci. U.S.A.
, vol.109
, pp. 11348-11353
-
-
Wallden, K.1
Williams, R.2
Yan, J.3
Lian, P.W.4
Wang, L.5
Thalassinos, K.6
Orlova, E.V.7
Waksman, G.8
-
23
-
-
42949089487
-
Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics
-
L.G. Trabuco, E. Villa, K. Mitra, J. Frank, and K. Schulten Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics Structure 16 2008 673 683
-
(2008)
Structure
, vol.16
, pp. 673-683
-
-
Trabuco, L.G.1
Villa, E.2
Mitra, K.3
Frank, J.4
Schulten, K.5
-
24
-
-
0035252083
-
The bacterial conjugation protein TrwB resembles ring helicases and F1-ATPase
-
F.X. Gomis-Ruth, G. Moncalian, R. Perez-Luque, A. Gonzalez, E. Cabezon, F. de la Cruz, and M. Coll The bacterial conjugation protein TrwB resembles ring helicases and F1-ATPase Nature 409 2001 637 641
-
(2001)
Nature
, vol.409
, pp. 637-641
-
-
Gomis-Ruth, F.X.1
Moncalian, G.2
Perez-Luque, R.3
Gonzalez, A.4
Cabezon, E.5
De La Cruz, F.6
Coll, M.7
-
26
-
-
57349157777
-
RecBCD enzyme and the repair of double-stranded DNA breaks
-
(Table of Contents)
-
M.S. Dillingham, and S.C. Kowalczykowski RecBCD enzyme and the repair of double-stranded DNA breaks Microbiol. Mol. Biol. Rev. 72 2008 642 671 (Table of Contents)
-
(2008)
Microbiol. Mol. Biol. Rev.
, vol.72
, pp. 642-671
-
-
Dillingham, M.S.1
Kowalczykowski, S.C.2
-
27
-
-
84871340015
-
Bacterial DNA repair: Recent insights into the mechanism of RecBCD, AddAB and AdnAB
-
D.B. Wigley Bacterial DNA repair: recent insights into the mechanism of RecBCD, AddAB and AdnAB Nat. Rev. Microbiol. 11 2013 9 13
-
(2013)
Nat. Rev. Microbiol.
, vol.11
, pp. 9-13
-
-
Wigley, D.B.1
-
28
-
-
84858796420
-
Insights into Chi recognition from the structure of an AddAB-type helicase-nuclease complex
-
K. Saikrishnan, J.T. Yeeles, N.S. Gilhooly, W.W. Krajewski, M.S. Dillingham, and D.B. Wigley Insights into Chi recognition from the structure of an AddAB-type helicase-nuclease complex EMBO J. 31 2012 1568 1578
-
(2012)
EMBO J.
, vol.31
, pp. 1568-1578
-
-
Saikrishnan, K.1
Yeeles, J.T.2
Gilhooly, N.S.3
Krajewski, W.W.4
Dillingham, M.S.5
Wigley, D.B.6
-
29
-
-
9144271294
-
Crystal structure of RecBCD enzyme reveals a machine for processing DNA breaks
-
M.R. Singleton, M.S. Dillingham, M. Gaudier, S.C. Kowalczykowski, and D.B. Wigley Crystal structure of RecBCD enzyme reveals a machine for processing DNA breaks Nature 432 2004 187 193
-
(2004)
Nature
, vol.432
, pp. 187-193
-
-
Singleton, M.R.1
Dillingham, M.S.2
Gaudier, M.3
Kowalczykowski, S.C.4
Wigley, D.B.5
-
30
-
-
84861860703
-
Alteration of chi recognition by RecBCD reveals a regulated molecular latch and suggests a channel-bypass mechanism for biological control
-
L. Yang, N. Handa, B. Liu, M.S. Dillingham, D.B. Wigley, and S.C. Kowalczykowski Alteration of chi recognition by RecBCD reveals a regulated molecular latch and suggests a channel-bypass mechanism for biological control Proc. Natl. Acad. Sci. U.S.A. 109 2012 8907 8912
-
(2012)
Proc. Natl. Acad. Sci. U.S.A.
, vol.109
, pp. 8907-8912
-
-
Yang, L.1
Handa, N.2
Liu, B.3
Dillingham, M.S.4
Wigley, D.B.5
Kowalczykowski, S.C.6
-
31
-
-
77956325620
-
DNA end resection by Dna2-Sgs1-RPA and its stimulation by Top3-Rmi1 and Mre11-Rad50-Xrs2
-
P. Cejka, E. Cannavo, P. Polaczek, T. Masuda-Sasa, S. Pokharel, J.L. Campbell, and S.C. Kowalczykowski DNA end resection by Dna2-Sgs1-RPA and its stimulation by Top3-Rmi1 and Mre11-Rad50-Xrs2 Nature 467 2010 112 116
-
(2010)
Nature
, vol.467
, pp. 112-116
-
-
Cejka, P.1
Cannavo, E.2
Polaczek, P.3
Masuda-Sasa, T.4
Pokharel, S.5
Campbell, J.L.6
Kowalczykowski, S.C.7
-
32
-
-
77956302112
-
Mechanism of the ATP-dependent DNA end-resection machinery from Saccharomyces cerevisiae
-
H. Niu, W.H. Chung, Z. Zhu, Y. Kwon, W. Zhao, P. Chi, R. Prakash, C. Seong, D. Liu, L. Lu, G. Ira, and P. Sung Mechanism of the ATP-dependent DNA end-resection machinery from Saccharomyces cerevisiae Nature 467 2010 108 111
-
(2010)
Nature
, vol.467
, pp. 108-111
-
-
Niu, H.1
Chung, W.H.2
Zhu, Z.3
Kwon, Y.4
Zhao, W.5
Chi, P.6
Prakash, R.7
Seong, C.8
Liu, D.9
Lu, L.10
Ira, G.11
Sung, P.12
-
33
-
-
41749101058
-
The Mre11 protein interacts with both Rad50 and the HerA bipolar helicase and is recruited to DNA following gamma irradiation in the archaeon Sulfolobus acidocaldarius
-
A. Quaiser, F. Constantinesco, M.F. White, P. Forterre, and C. Elie The Mre11 protein interacts with both Rad50 and the HerA bipolar helicase and is recruited to DNA following gamma irradiation in the archaeon Sulfolobus acidocaldarius BMC Mol. Biol. 9 2008 25
-
(2008)
BMC Mol. Biol.
, vol.9
, pp. 25
-
-
Quaiser, A.1
Constantinesco, F.2
White, M.F.3
Forterre, P.4
Elie, C.5
-
34
-
-
38649140681
-
Physical and functional interaction between archaeal single-stranded DNA-binding protein and the 5′-3′ nuclease NurA
-
T. Wei, S. Zhang, S. Zhu, D. Sheng, J. Ni, and Y. Shen Physical and functional interaction between archaeal single-stranded DNA-binding protein and the 5′-3′ nuclease NurA Biochem. Biophys. Res. Commun. 367 2008 523 529
-
(2008)
Biochem. Biophys. Res. Commun.
, vol.367
, pp. 523-529
-
-
Wei, T.1
Zhang, S.2
Zhu, S.3
Sheng, D.4
Ni, J.5
Shen, Y.6
-
37
-
-
79960898027
-
Computer controlled cryo-electron microscopy-TOM(2) a software package for high-throughput applications
-
A. Korinek, F. Beck, W. Baumeister, S. Nickell, and J.M. Plitzko Computer controlled cryo-electron microscopy-TOM(2) a software package for high-throughput applications J. Struct. Biol. 175 2011 394 405
-
(2011)
J. Struct. Biol.
, vol.175
, pp. 394-405
-
-
Korinek, A.1
Beck, F.2
Baumeister, W.3
Nickell, S.4
Plitzko, J.M.5
-
38
-
-
84880848354
-
Electron counting and beam-induced motion correction enable near-atomic-resolution single-particle cryo-EM
-
X. Li, P. Mooney, S. Zheng, C.R. Booth, M.B. Braunfeld, S. Gubbens, D.A. Agard, and Y. Cheng Electron counting and beam-induced motion correction enable near-atomic-resolution single-particle cryo-EM Nat. Methods 10 2013 584 590
-
(2013)
Nat. Methods
, vol.10
, pp. 584-590
-
-
Li, X.1
Mooney, P.2
Zheng, S.3
Booth, C.R.4
Braunfeld, M.B.5
Gubbens, S.6
Agard, D.A.7
Cheng, Y.8
-
39
-
-
0038441501
-
Accurate determination of local defocus and specimen tilt in electron microscopy
-
J.A. Mindell, and N. Grigorieff Accurate determination of local defocus and specimen tilt in electron microscopy J. Struct. Biol. 142 2003 334 347
-
(2003)
J. Struct. Biol.
, vol.142
, pp. 334-347
-
-
Mindell, J.A.1
Grigorieff, N.2
-
40
-
-
33845332754
-
EMAN2: An extensible image processing suite for electron microscopy
-
G. Tang, L. Peng, P.R. Baldwin, D.S. Mann, W. Jiang, I. Rees, and S.J. Ludtke EMAN2: an extensible image processing suite for electron microscopy J. Struct. Biol. 157 2007 38 46
-
(2007)
J. Struct. Biol.
, vol.157
, pp. 38-46
-
-
Tang, G.1
Peng, L.2
Baldwin, P.R.3
Mann, D.S.4
Jiang, W.5
Rees, I.6
Ludtke, S.J.7
-
41
-
-
84856489442
-
HHblits: Lightning-fast iterative protein sequence searching by HMM-HMM alignment
-
M. Remmert, A. Biegert, A. Hauser, and J. Soding HHblits: lightning-fast iterative protein sequence searching by HMM-HMM alignment Nat. Methods 9 2012 173 175
-
(2012)
Nat. Methods
, vol.9
, pp. 173-175
-
-
Remmert, M.1
Biegert, A.2
Hauser, A.3
Soding, J.4
-
42
-
-
43749107283
-
Comparative protein structure modeling using Modeller
-
(Chapter 5: Unit 5.6)
-
N. Eswar, B. Webb, M.A. Marti-Renom, M.S. Madhusudhan, D. Eramian, M.Y. Shen, U. Pieper, and A. Sali Comparative protein structure modeling using Modeller Curr. Protoc. Bioinformatics 2006 (Chapter 5: Unit 5.6)
-
(2006)
Curr. Protoc. Bioinformatics
-
-
Eswar, N.1
Webb, B.2
Marti-Renom, M.A.3
Madhusudhan, M.S.4
Eramian, D.5
Shen, M.Y.6
Pieper, U.7
Sali, A.8
-
43
-
-
0027136282
-
Comparative protein modelling by satisfaction of spatial restraints
-
A. Sali, and T.L. Blundell Comparative protein modelling by satisfaction of spatial restraints J. Mol. Biol. 234 1993 779 815
-
(1993)
J. Mol. Biol.
, vol.234
, pp. 779-815
-
-
Sali, A.1
Blundell, T.L.2
-
44
-
-
35648968070
-
Visualization software for molecular assemblies
-
T.D. Goddard, and T.E. Ferrin Visualization software for molecular assemblies Curr. Opin. Struct. Biol. 17 2007 587 595
-
(2007)
Curr. Opin. Struct. Biol.
, vol.17
, pp. 587-595
-
-
Goddard, T.D.1
Ferrin, T.E.2
-
45
-
-
4444221565
-
UCSF Chimera - A visualization system for exploratory research and analysis
-
E.F. Pettersen, T.D. Goddard, C.C. Huang, G.S. Couch, D.M. Greenblatt, E.C. Meng, and T.E. Ferrin UCSF Chimera - a visualization system for exploratory research and analysis J. Comput. Chem. 25 2004 1605 1612
-
(2004)
J. Comput. Chem.
, vol.25
, pp. 1605-1612
-
-
Pettersen, E.F.1
Goddard, T.D.2
Huang, C.C.3
Couch, G.S.4
Greenblatt, D.M.5
Meng, E.C.6
Ferrin, T.E.7
-
46
-
-
84866269021
-
Near-atomic resolution structural model of the yeast 26S proteasome
-
F. Beck, P. Unverdorben, S. Bohn, A. Schweitzer, G. Pfeifer, E. Sakata, S. Nickell, J.M. Plitzko, E. Villa, W. Baumeister, and F. Forster Near-atomic resolution structural model of the yeast 26S proteasome Proc. Natl. Acad. Sci. U.S.A. 109 2012 14870 14875
-
(2012)
Proc. Natl. Acad. Sci. U.S.A.
, vol.109
, pp. 14870-14875
-
-
Beck, F.1
Unverdorben, P.2
Bohn, S.3
Schweitzer, A.4
Pfeifer, G.5
Sakata, E.6
Nickell, S.7
Plitzko, J.M.8
Villa, E.9
Baumeister, W.10
Forster, F.11
|