-
2
-
-
0028839860
-
Comprehensive analysis of hydrogen bonds in regulatory protein DNA-complexes: in search of common principles
-
10.1006/jmbi.1995.0559, 7563096
-
Mandel-Gutfreund Y, Schueler O, Margalit H. Comprehensive analysis of hydrogen bonds in regulatory protein DNA-complexes: in search of common principles. J Mol Biol 1995, 253:370-382. 10.1006/jmbi.1995.0559, 7563096.
-
(1995)
J Mol Biol
, vol.253
, pp. 370-382
-
-
Mandel-Gutfreund, Y.1
Schueler, O.2
Margalit, H.3
-
3
-
-
0035393302
-
Amino acid-base interactions: a three-dimensional analysis of protein-DNA interactions at an atomic level
-
10.1093/nar/29.13.2860, 55782, 11433033
-
Luscombe NM, Laskowski RA, Thornton JM. Amino acid-base interactions: a three-dimensional analysis of protein-DNA interactions at an atomic level. Nucleic Acids Res 2001, 29:2860-2874. 10.1093/nar/29.13.2860, 55782, 11433033.
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 2860-2874
-
-
Luscombe, N.M.1
Laskowski, R.A.2
Thornton, J.M.3
-
4
-
-
0035976713
-
Do water molecules mediate protein-DNA recognition?
-
10.1006/jmbi.2001.5154, 11846571
-
Reddy CK, Das A, Jayaram B. Do water molecules mediate protein-DNA recognition?. J Mol Biol 2001, 314:619-632. 10.1006/jmbi.2001.5154, 11846571.
-
(2001)
J Mol Biol
, vol.314
, pp. 619-632
-
-
Reddy, C.K.1
Das, A.2
Jayaram, B.3
-
5
-
-
0025995844
-
A structural taxonomy of DNA-binding domains
-
10.1038/353715a0, 1944532
-
Harrison SC. A structural taxonomy of DNA-binding domains. Nature 1991, 353:715-719. 10.1038/353715a0, 1944532.
-
(1991)
Nature
, vol.353
, pp. 715-719
-
-
Harrison, S.C.1
-
6
-
-
12444259635
-
Building an automated classification of DNA-binding protein domains
-
10.1093/bioinformatics/18.suppl_2.S192, 12386003
-
Ponomarenko JV, Bourne PE, Shindyalov IN. Building an automated classification of DNA-binding protein domains. Bioinformatics 2002, 18(Suppl 2):S192-201. 10.1093/bioinformatics/18.suppl_2.S192, 12386003.
-
(2002)
Bioinformatics
, vol.18
, Issue.SUPPL. 2
-
-
Ponomarenko, J.V.1
Bourne, P.E.2
Shindyalov, I.N.3
-
7
-
-
33748290192
-
Classification of protein-DNA complexes based on structural descriptors
-
10.1016/j.str.2006.06.018, 16962967
-
Prabakaran P, Siebers JG, Ahmad S, Gromiha MM, Singarayan MG, Sarai A. Classification of protein-DNA complexes based on structural descriptors. Structure 2006, 14:1355-1367. 10.1016/j.str.2006.06.018, 16962967.
-
(2006)
Structure
, vol.14
, pp. 1355-1367
-
-
Prabakaran, P.1
Siebers, J.G.2
Ahmad, S.3
Gromiha, M.M.4
Singarayan, M.G.5
Sarai, A.6
-
8
-
-
33748335622
-
A DNA-centric look at protein-DNA complexes
-
10.1016/j.str.2006.08.003, 16962964
-
Sen TZ, Kloczkowski A, Jernigan RL. A DNA-centric look at protein-DNA complexes. Structure 2006, 14:1341-1342. 10.1016/j.str.2006.08.003, 16962964.
-
(2006)
Structure
, vol.14
, pp. 1341-1342
-
-
Sen, T.Z.1
Kloczkowski, A.2
Jernigan, R.L.3
-
9
-
-
0033954256
-
The Protein Data Bank
-
10.1093/nar/28.1.235, 102472, 10592235
-
Berman HM, Westbrook J, Feng Z, Gilliland G, Bhat TN, Weissig H, Shindyalov IN, Bourne PE. The Protein Data Bank. Nucleic Acids Res 2000, 28:235-242. 10.1093/nar/28.1.235, 102472, 10592235.
-
(2000)
Nucleic Acids Res
, vol.28
, pp. 235-242
-
-
Berman, H.M.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.N.5
Weissig, H.6
Shindyalov, I.N.7
Bourne, P.E.8
-
10
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
-
10.1093/nar/25.17.3389, 146917, 9254694
-
Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997, 25:3389-3402. 10.1093/nar/25.17.3389, 146917, 9254694.
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schäffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
11
-
-
0036087630
-
CDD: a database of conserved domain alignments with links to domain three-dimensional structure
-
10.1093/nar/30.1.281, 99109, 11752315
-
Marchler-Bauer A, Panchenko AR, Shoemaker BA, Thiessen PA, Geer LY, Bryant SH. CDD: a database of conserved domain alignments with links to domain three-dimensional structure. Nucleic Acids Res 2002, 30:281-283. 10.1093/nar/30.1.281, 99109, 11752315.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 281-283
-
-
Marchler-Bauer, A.1
Panchenko, A.R.2
Shoemaker, B.A.3
Thiessen, P.A.4
Geer, L.Y.5
Bryant, S.H.6
-
12
-
-
0031757669
-
Multiple sequence alignment with Clustal X
-
10.1016/S0968-0004(98)01285-7, 9810230
-
Jeanmougin F, Thompson JD, Gouy M, Higgins DG, Gibson TJ. Multiple sequence alignment with Clustal X. Trends Biochem Sci 1998, 23:403-405. 10.1016/S0968-0004(98)01285-7, 9810230.
-
(1998)
Trends Biochem Sci
, vol.23
, pp. 403-405
-
-
Jeanmougin, F.1
Thompson, J.D.2
Gouy, M.3
Higgins, D.G.4
Gibson, T.J.5
-
13
-
-
0025809889
-
Iron-dependent regulation of diphtheria toxin and siderophore expression by the cloned Corynebacterium diphtheriae repressor gene dtxR in C. diphtheriae C7 strains
-
257940, 1828057
-
Schmitt MP, Holmes RK. Iron-dependent regulation of diphtheria toxin and siderophore expression by the cloned Corynebacterium diphtheriae repressor gene dtxR in C. diphtheriae C7 strains. Infect Immun 1991, 59:1899-1904. 257940, 1828057.
-
(1991)
Infect Immun
, vol.59
, pp. 1899-1904
-
-
Schmitt, M.P.1
Holmes, R.K.2
-
14
-
-
0028822995
-
Characterization of an iron-dependent regulatory protein (IdeR) of Mycobacterium tuberculosis as a functional homolog of the diphtheria toxin repressor (DtxR) from Corynebacterium diphtheriae
-
173608, 7591059
-
Schmitt MP, Predich M, Doukhan L, Smith I, Holmes RK. Characterization of an iron-dependent regulatory protein (IdeR) of Mycobacterium tuberculosis as a functional homolog of the diphtheria toxin repressor (DtxR) from Corynebacterium diphtheriae. Infect Immun 1995, 63:4284-4289. 173608, 7591059.
-
(1995)
Infect Immun
, vol.63
, pp. 4284-4289
-
-
Schmitt, M.P.1
Predich, M.2
Doukhan, L.3
Smith, I.4
Holmes, R.K.5
-
15
-
-
0025766848
-
Compilation and alignment of DNA polymerase sequences
-
10.1093/nar/19.15.4045, 328540, 1870963
-
Ito J, Braithwaite DK. Compilation and alignment of DNA polymerase sequences. Nucleic Acids Res 1991, 19:4045-4057. 10.1093/nar/19.15.4045, 328540, 1870963.
-
(1991)
Nucleic Acids Res
, vol.19
, pp. 4045-4057
-
-
Ito, J.1
Braithwaite, D.K.2
-
16
-
-
0028961335
-
SCOP: a structural classification of proteins database for the investigation of sequences and structures
-
Murzin AG, Brenner SE, Hubbard T, Chothia C. SCOP: a structural classification of proteins database for the investigation of sequences and structures. J Mol Biol 1995, 247:536-540.
-
(1995)
J Mol Biol
, vol.247
, pp. 536-540
-
-
Murzin, A.G.1
Brenner, S.E.2
Hubbard, T.3
Chothia, C.4
-
17
-
-
33747859069
-
PAST: fast structure-based searching in the PDB
-
1538836, 16844992
-
Täubig H, Buchner A, Griebsch J. PAST: fast structure-based searching in the PDB. Nucleic Acids Res 2006, 34:W20-23. 1538836, 16844992.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Täubig, H.1
Buchner, A.2
Griebsch, J.3
-
18
-
-
57749198023
-
Structural basis of UV DNA-damage recognition by the DDB1-DDB2 complex
-
10.1016/j.cell.2008.10.045, 2676164, 19109893
-
Scrima A, Konícková R, Czyzewski BK, Kawasaki Y, Jeffrey PD, Groisman R, Nakatani Y, Iwai S, Pavletich NP, Thomä NH. Structural basis of UV DNA-damage recognition by the DDB1-DDB2 complex. Cell 2008, 135:1213-1223. 10.1016/j.cell.2008.10.045, 2676164, 19109893.
-
(2008)
Cell
, vol.135
, pp. 1213-1223
-
-
Scrima, A.1
Konícková, R.2
Czyzewski, B.K.3
Kawasaki, Y.4
Jeffrey, P.D.5
Groisman, R.6
Nakatani, Y.7
Iwai, S.8
Pavletich, N.P.9
Thomä, N.H.10
-
19
-
-
33846087417
-
DNA Recognition Mechanism of the ONECUT Homeodomain of Transcription Factor HNF-6
-
10.1016/j.str.2006.11.004, 17223534
-
Iyaguchi D, Yao M, Watanabe N, Nishihira J, Tanaka I. DNA Recognition Mechanism of the ONECUT Homeodomain of Transcription Factor HNF-6. Structure 2007, 15:75-83. 10.1016/j.str.2006.11.004, 17223534.
-
(2007)
Structure
, vol.15
, pp. 75-83
-
-
Iyaguchi, D.1
Yao, M.2
Watanabe, N.3
Nishihira, J.4
Tanaka, I.5
-
20
-
-
0036862511
-
Diabetes mutations delineate an atypical POU domain in HNF-1alpha
-
10.1016/S1097-2765(02)00704-9, 12453420
-
Chi Y, Frantz JD, Oh B, Hansen L, Dhe-Paganon S, Shoelson SE. Diabetes mutations delineate an atypical POU domain in HNF-1alpha. Mol Cell 2002, 10:1129-1137. 10.1016/S1097-2765(02)00704-9, 12453420.
-
(2002)
Mol Cell
, vol.10
, pp. 1129-1137
-
-
Chi, Y.1
Frantz, J.D.2
Oh, B.3
Hansen, L.4
Dhe-Paganon, S.5
Shoelson, S.E.6
-
21
-
-
17044383349
-
Structural basis of Prospero-DNA interactionimplications for transcription regulationin developing cells
-
10.1016/j.str.2005.01.023, 15837198
-
Yousef MS, Matthews BW. Structural basis of Prospero-DNA interactionimplications for transcription regulationin developing cells. Structure 2005, 13:601-607. 10.1016/j.str.2005.01.023, 15837198.
-
(2005)
Structure
, vol.13
, pp. 601-607
-
-
Yousef, M.S.1
Matthews, B.W.2
-
22
-
-
0345803928
-
Crystal structure of the human centromere protein B (CENP-B) dimerization domain at 1.65-A resolution
-
10.1074/jbc.M310388200, 14522975
-
Tawaramoto MS, Park S, Tanaka Y, Nureki O, Kurumizaka H, Yokoyama S. Crystal structure of the human centromere protein B (CENP-B) dimerization domain at 1.65-A resolution. J Biol Chem 2003, 278:51454-51461. 10.1074/jbc.M310388200, 14522975.
-
(2003)
J Biol Chem
, vol.278
, pp. 51454-51461
-
-
Tawaramoto, M.S.1
Park, S.2
Tanaka, Y.3
Nureki, O.4
Kurumizaka, H.5
Yokoyama, S.6
-
23
-
-
0034087676
-
Structural basis of gene regulation by the tetracycline inducible Tet repressor-operator system
-
10.1038/73324, 10700280
-
Orth P, Schnappinger D, Hillen W, Saenger W, Hinrichs W. Structural basis of gene regulation by the tetracycline inducible Tet repressor-operator system. Nat Struct Biol 2000, 7:215-219. 10.1038/73324, 10700280.
-
(2000)
Nat Struct Biol
, vol.7
, pp. 215-219
-
-
Orth, P.1
Schnappinger, D.2
Hillen, W.3
Saenger, W.4
Hinrichs, W.5
-
24
-
-
0036500260
-
Structural basis for cooperative DNA binding by two dimers of the multidrug-binding protein QacR
-
10.1093/emboj/21.5.1210, 125875, 11867549
-
Schumacher MA, Miller MC, Grkovic S, Brown MH, Skurray RA, Brennan RG. Structural basis for cooperative DNA binding by two dimers of the multidrug-binding protein QacR. EMBO J 2002, 21:1210-1218. 10.1093/emboj/21.5.1210, 125875, 11867549.
-
(2002)
EMBO J
, vol.21
, pp. 1210-1218
-
-
Schumacher, M.A.1
Miller, M.C.2
Grkovic, S.3
Brown, M.H.4
Skurray, R.A.5
Brennan, R.G.6
-
25
-
-
77957244395
-
Crystal structures of the multidrug binding repressor Corynebacterium glutamicum CgmR in complex with inducers and with an operator
-
Itou H, Watanabe N, Yao M, Shirakihara Y, Tanaka I. Crystal structures of the multidrug binding repressor Corynebacterium glutamicum CgmR in complex with inducers and with an operator. J Molecular Biol 2010, 403:174-184.
-
(2010)
J Molecular Biol
, vol.403
, pp. 174-184
-
-
Itou, H.1
Watanabe, N.2
Yao, M.3
Shirakihara, Y.4
Tanaka, I.5
-
26
-
-
0033198766
-
Crystal structure of a prokaryotic replication initiator protein bound to DNA at 2.6 A resolution
-
10.1093/emboj/18.17.4597, 1171534, 10469640
-
Komori H, Matsunaga F, Higuchi Y, Ishiai M, Wada C, Miki K. Crystal structure of a prokaryotic replication initiator protein bound to DNA at 2.6 A resolution. EMBO J 1999, 18:4597-4607. 10.1093/emboj/18.17.4597, 1171534, 10469640.
-
(1999)
EMBO J
, vol.18
, pp. 4597-4607
-
-
Komori, H.1
Matsunaga, F.2
Higuchi, Y.3
Ishiai, M.4
Wada, C.5
Miki, K.6
-
27
-
-
28544449434
-
Structures of ParB bound to DNA reveal mechanism of partition complex formation
-
10.1038/nature04149, 16306995
-
Schumacher MA, Funnell BE. Structures of ParB bound to DNA reveal mechanism of partition complex formation. Nature 2005, 438:516-519. 10.1038/nature04149, 16306995.
-
(2005)
Nature
, vol.438
, pp. 516-519
-
-
Schumacher, M.A.1
Funnell, B.E.2
-
28
-
-
0031024680
-
Differences between plant and animal Myb domains are fundamental for DNA binding activity, and chimeric Myb domains have novel DNA binding specificities
-
10.1074/jbc.272.1.563, 8995298
-
Williams CE, Grotewold E. Differences between plant and animal Myb domains are fundamental for DNA binding activity, and chimeric Myb domains have novel DNA binding specificities. J Biol Chem 1997, 272:563-571. 10.1074/jbc.272.1.563, 8995298.
-
(1997)
J Biol Chem
, vol.272
, pp. 563-571
-
-
Williams, C.E.1
Grotewold, E.2
-
29
-
-
64549150050
-
Crystal structure of KorA bound to operator DNA: insight into repressor cooperation in RP4 gene regulation
-
10.1093/nar/gkp044, 2665229, 19190096
-
König B, Müller JJ, Lanka E, Heinemann U. Crystal structure of KorA bound to operator DNA: insight into repressor cooperation in RP4 gene regulation. Nucleic Acids Res 2009, 37:1915-1924. 10.1093/nar/gkp044, 2665229, 19190096.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. 1915-1924
-
-
König, B.1
Müller, J.J.2
Lanka, E.3
Heinemann, U.4
-
30
-
-
65149085041
-
Recognition of at-rich DNA binding sites by the MogR repressor
-
10.1016/j.str.2009.02.018, 2712671, 19446532
-
Shen A, Higgins DE, Panne D. Recognition of at-rich DNA binding sites by the MogR repressor. Structure 2009, 17:769-777. 10.1016/j.str.2009.02.018, 2712671, 19446532.
-
(2009)
Structure
, vol.17
, pp. 769-777
-
-
Shen, A.1
Higgins, D.E.2
Panne, D.3
-
31
-
-
42949116442
-
Structure of a protein-DNA complex essential for DNA protection in spores of Bacillus species
-
10.1073/pnas.0708244105, 2268541, 18287075
-
Lee KS, Bumbaca D, Kosman J, Setlow P, Jedrzejas MJ. Structure of a protein-DNA complex essential for DNA protection in spores of Bacillus species. Proc Nat Acad Sci 2008, 105:2806. 10.1073/pnas.0708244105, 2268541, 18287075.
-
(2008)
Proc Nat Acad Sci
, vol.105
, pp. 2806
-
-
Lee, K.S.1
Bumbaca, D.2
Kosman, J.3
Setlow, P.4
Jedrzejas, M.J.5
-
32
-
-
33748625150
-
The structural basis for promoter -35 element recognition by the group IV sigma factors
-
10.1371/journal.pbio.0040269, 1540707, 16903784
-
Lane WJ, Darst SA. The structural basis for promoter -35 element recognition by the group IV sigma factors. PLoS Biol 2006, 4:e269. 10.1371/journal.pbio.0040269, 1540707, 16903784.
-
(2006)
PLoS Biol
, vol.4
-
-
Lane, W.J.1
Darst, S.A.2
-
33
-
-
66749180668
-
McsB is a protein Arginine Kinase that Phosphorylates and inhibits the heat-shock regulator CtsR
-
10.1126/science.1170088, 19498169
-
Fuhrmann J, Schmidt A, Spiess S, Lehner A, Turgay K, Mechtler K, Charpentier E, Clausen T. McsB is a protein Arginine Kinase that Phosphorylates and inhibits the heat-shock regulator CtsR. Science 2009, 324:1323-1327. 10.1126/science.1170088, 19498169.
-
(2009)
Science
, vol.324
, pp. 1323-1327
-
-
Fuhrmann, J.1
Schmidt, A.2
Spiess, S.3
Lehner, A.4
Turgay, K.5
Mechtler, K.6
Charpentier, E.7
Clausen, T.8
-
34
-
-
49249132732
-
Structural analysis of the genetic switch that regulates the expression of restriction-modification genes
-
10.1093/nar/gkn448, 2504287, 18644840
-
McGeehan JE, Streeter SD, Thresh SJ, Ball N, Ravelli RB, Kneale GG. Structural analysis of the genetic switch that regulates the expression of restriction-modification genes. Nucleic Acids Res 2008, 36:4778. 10.1093/nar/gkn448, 2504287, 18644840.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. 4778
-
-
McGeehan, J.E.1
Streeter, S.D.2
Thresh, S.J.3
Ball, N.4
Ravelli, R.B.5
Kneale, G.G.6
-
35
-
-
0038476181
-
Structural basis of replication origin recognition by the DnaA protein
-
10.1093/nar/gkg309, 153737, 12682358
-
Fujikawa N, Kurumizaka H, Nureki O, Terada T, Shirouzu M, Katayama T, Yokoyama S. Structural basis of replication origin recognition by the DnaA protein. Nucleic Acids Res 2003, 31:2077-2086. 10.1093/nar/gkg309, 153737, 12682358.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 2077-2086
-
-
Fujikawa, N.1
Kurumizaka, H.2
Nureki, O.3
Terada, T.4
Shirouzu, M.5
Katayama, T.6
Yokoyama, S.7
-
36
-
-
0036053872
-
DNA complexed structure of the key transcription factor initiating development in sporulating bacteria
-
10.1016/S0969-2126(02)00803-1, 12176382
-
Zhao H, Msadek T, Zapf J, Madhusudan, Hoch JA, Varughese KI. DNA complexed structure of the key transcription factor initiating development in sporulating bacteria. Structure 2002, 10:1041-1050. 10.1016/S0969-2126(02)00803-1, 12176382.
-
(2002)
Structure
, vol.10
, pp. 1041-1050
-
-
Zhao, H.1
Msadek, T.2
Zapf, J.3
Madhusudan4
Hoch, J.A.5
Varughese, K.I.6
-
37
-
-
3042642002
-
Sequence-specific DNA binding determined by contacts outside the helix-turn-helix motif of the ParB homolog KorB
-
10.1038/nsmb773, 15170177
-
Khare D, Ziegelin G, Lanka E, Heinemann U. Sequence-specific DNA binding determined by contacts outside the helix-turn-helix motif of the ParB homolog KorB. Nat Struct Mol Biol 2004, 11:656-663. 10.1038/nsmb773, 15170177.
-
(2004)
Nat Struct Mol Biol
, vol.11
, pp. 656-663
-
-
Khare, D.1
Ziegelin, G.2
Lanka, E.3
Heinemann, U.4
-
38
-
-
25844499232
-
A methylation-dependent electrostatic switch controls DNA repair and transcriptional activation by E. coli ada
-
10.1016/j.molcel.2005.08.013, 16209950
-
He C, Hus J, Sun LJ, Zhou P, Norman DPG, Dötsch V, Wei H, Gross JD, Lane WS, Wagner G, Verdine GL. A methylation-dependent electrostatic switch controls DNA repair and transcriptional activation by E. coli ada. Mol Cell 2005, 20:117-129. 10.1016/j.molcel.2005.08.013, 16209950.
-
(2005)
Mol Cell
, vol.20
, pp. 117-129
-
-
He, C.1
Hus, J.2
Sun, L.J.3
Zhou, P.4
Norman, D.P.G.5
Dötsch, V.6
Wei, H.7
Gross, J.D.8
Lane, W.S.9
Wagner, G.10
Verdine, G.L.11
-
39
-
-
58549108193
-
The crystal structure of the second Z-DNA binding domain of human DAI (ZBP1) in complex with Z-DNA reveals an unusual binding mode to Z-DNA
-
10.1073/pnas.0810463106, 2634953, 19095800
-
Ha SC, Kim D, Hwang HY, Rich A, Kim YG, Kim KK. The crystal structure of the second Z-DNA binding domain of human DAI (ZBP1) in complex with Z-DNA reveals an unusual binding mode to Z-DNA. Proc Nat Acad Sci 2008, 105:20671. 10.1073/pnas.0810463106, 2634953, 19095800.
-
(2008)
Proc Nat Acad Sci
, vol.105
, pp. 20671
-
-
Ha, S.C.1
Kim, D.2
Hwang, H.Y.3
Rich, A.4
Kim, Y.G.5
Kim, K.K.6
-
40
-
-
5144228027
-
A poxvirus protein forms a complex with left-handed Z-DNA: crystal structure of a Yatapoxvirus Zalpha bound to DNA
-
10.1073/pnas.0405586101, 521960, 15448208
-
Ha SC, Lokanath NK, Van Quyen D, Wu CA, Lowenhaupt K, Rich A, Kim Y, Kim KK. A poxvirus protein forms a complex with left-handed Z-DNA: crystal structure of a Yatapoxvirus Zalpha bound to DNA. Proc Natl Acad Sci USA 2004, 101:14367-14372. 10.1073/pnas.0405586101, 521960, 15448208.
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 14367-14372
-
-
Ha, S.C.1
Lokanath, N.K.2
Van Quyen, D.3
Wu, C.A.4
Lowenhaupt, K.5
Rich, A.6
Kim, Y.7
Kim, K.K.8
-
41
-
-
0345690206
-
Structural basis of core promoter recognition in a primitive eukaryote
-
10.1016/S0092-8674(03)00887-0, 14622596
-
Schumacher MA, Lau AOT, Johnson PJ. Structural basis of core promoter recognition in a primitive eukaryote. Cell 2003, 115:413-424. 10.1016/S0092-8674(03)00887-0, 14622596.
-
(2003)
Cell
, vol.115
, pp. 413-424
-
-
Schumacher, M.A.1
Lau, A.O.T.2
Johnson, P.J.3
-
42
-
-
36749036126
-
Feast/famine regulation by transcription factor FL11 for the survival of the Hyperthermophilic Archaeon Pyrococcus OT3
-
10.1016/j.str.2007.10.015, 18073105
-
Yokoyama K, Ishijima SA, Koike H, Kurihara C, Shimowasa A, Kabasawa M, Kawashima T, Suzuki M. Feast/famine regulation by transcription factor FL11 for the survival of the Hyperthermophilic Archaeon Pyrococcus OT3. Structure 2007, 15:1542-1554. 10.1016/j.str.2007.10.015, 18073105.
-
(2007)
Structure
, vol.15
, pp. 1542-1554
-
-
Yokoyama, K.1
Ishijima, S.A.2
Koike, H.3
Kurihara, C.4
Shimowasa, A.5
Kabasawa, M.6
Kawashima, T.7
Suzuki, M.8
-
43
-
-
67649986228
-
Structure and function of an ADPRibose- dependent transcriptional regulator of NAD metabolism
-
10.1016/j.str.2009.05.012, 2896262, 19604474
-
Huang N, De Ingeniis J, Galeazzi L, Mancini C, Korostelev YD, Rakhmaninova AB, Gelfand MS, Rodionov DA, Raffaelli N, Zhang H. Structure and function of an ADPRibose- dependent transcriptional regulator of NAD metabolism. Structure 2009, 17:939-951. 10.1016/j.str.2009.05.012, 2896262, 19604474.
-
(2009)
Structure
, vol.17
, pp. 939-951
-
-
Huang, N.1
De Ingeniis, J.2
Galeazzi, L.3
Mancini, C.4
Korostelev, Y.D.5
Rakhmaninova, A.B.6
Gelfand, M.S.7
Rodionov, D.A.8
Raffaelli, N.9
Zhang, H.10
-
44
-
-
56949100533
-
Crystal structure of the arginine repressor protein in complex with the DNA operator from Mycobacterium tuberculosis
-
10.1016/j.jmb.2008.10.015, 18952097
-
Cherney LT, Cherney MM, Garen CR, Lu GJ, James MN. Crystal structure of the arginine repressor protein in complex with the DNA operator from Mycobacterium tuberculosis. J Mol Biol 2008, 384:1330-1340. 10.1016/j.jmb.2008.10.015, 18952097.
-
(2008)
J Mol Biol
, vol.384
, pp. 1330-1340
-
-
Cherney, L.T.1
Cherney, M.M.2
Garen, C.R.3
Lu, G.J.4
James, M.N.5
-
45
-
-
43049109103
-
Structure and function of the arginine repressor-operator complex from Bacillus subtilis
-
10.1016/j.jmb.2008.03.007, 18455186
-
Garnett JA, Marincs F, Baumberg S, Stockley PG, Phillips SEV. Structure and function of the arginine repressor-operator complex from Bacillus subtilis. J Mol Biol 2008, 379:284-298. 10.1016/j.jmb.2008.03.007, 18455186.
-
(2008)
J Mol Biol
, vol.379
, pp. 284-298
-
-
Garnett, J.A.1
Marincs, F.2
Baumberg, S.3
Stockley, P.G.4
Phillips, S.E.V.5
-
46
-
-
0034708205
-
Structure of the winged-helix protein hRFX1 reveals a new mode of DNA binding
-
10.1038/35002634, 10706293
-
Gajiwala KS, Chen H, Cornille F, Roques BP, Reith W, Mach B, Burley SK. Structure of the winged-helix protein hRFX1 reveals a new mode of DNA binding. Nature 2000, 403:916-921. 10.1038/35002634, 10706293.
-
(2000)
Nature
, vol.403
, pp. 916-921
-
-
Gajiwala, K.S.1
Chen, H.2
Cornille, F.3
Roques, B.P.4
Reith, W.5
Mach, B.6
Burley, S.K.7
-
47
-
-
0036583638
-
Tandem DNA recognition by PhoB, a two-component signal transduction transcriptional activator
-
10.1016/S0969-2126(02)00761-X, 12015152
-
Blanco AG, Sola M, Gomis-Rüth FX, Coll M. Tandem DNA recognition by PhoB, a two-component signal transduction transcriptional activator. Structure 2002, 10:701-713. 10.1016/S0969-2126(02)00761-X, 12015152.
-
(2002)
Structure
, vol.10
, pp. 701-713
-
-
Blanco, A.G.1
Sola, M.2
Gomis-Rüth, F.X.3
Coll, M.4
-
48
-
-
41949137280
-
Crystal structure of the [2Fe-2S] oxidativestress sensor SoxR bound to DNA
-
10.1073/pnas.0709188105, 2393793, 18334645
-
Watanabe S, Kita A, Kobayashi K, Miki K. Crystal structure of the [2Fe-2S] oxidativestress sensor SoxR bound to DNA. Proc Natl Acad Sci USA 2008, 105:4121-4126. 10.1073/pnas.0709188105, 2393793, 18334645.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 4121-4126
-
-
Watanabe, S.1
Kita, A.2
Kobayashi, K.3
Miki, K.4
-
49
-
-
0035843172
-
Crystal structures of SarA, a pleiotropic regulator of virulence genes in S. aureus
-
10.1038/35051623, 11196648
-
Schumacher MA, Hurlburt BK, Brennan RG. Crystal structures of SarA, a pleiotropic regulator of virulence genes in S. aureus. Nature 2001, 409:215-219. 10.1038/35051623, 11196648.
-
(2001)
Nature
, vol.409
, pp. 215-219
-
-
Schumacher, M.A.1
Hurlburt, B.K.2
Brennan, R.G.3
-
50
-
-
77449088296
-
THAP proteins target specific DNA sites through bipartite recognition of adjacent major and minor grooves
-
10.1038/nsmb.1742, 2933787, 20010837
-
Sabogal A, Lyubimov AY, Corn JE, Berger JM, Rio DC. THAP proteins target specific DNA sites through bipartite recognition of adjacent major and minor grooves. Nat Struct Mol Biol 2009, 17:117-123. 10.1038/nsmb.1742, 2933787, 20010837.
-
(2009)
Nat Struct Mol Biol
, vol.17
, pp. 117-123
-
-
Sabogal, A.1
Lyubimov, A.Y.2
Corn, J.E.3
Berger, J.M.4
Rio, D.C.5
-
51
-
-
48749107415
-
Crystal structures of multiple GATA zinc fingers bound to DNA reveal new insights into DNA recognition and self-association by GATA
-
10.1016/j.jmb.2008.06.072, 18621058
-
Bates DL, Chen Y, Kim G, Guo L, Chen L. Crystal structures of multiple GATA zinc fingers bound to DNA reveal new insights into DNA recognition and self-association by GATA. J. Mol. Biol 2008, 381:1292-1306. 10.1016/j.jmb.2008.06.072, 18621058.
-
(2008)
J. Mol. Biol
, vol.381
, pp. 1292-1306
-
-
Bates, D.L.1
Chen, Y.2
Kim, G.3
Guo, L.4
Chen, L.5
-
52
-
-
0037446946
-
Structure of the GCM domain-DNA complex: a DNA-binding domain with a novel fold and mode of target site recognition
-
10.1093/emboj/cdg182, 154474, 12682016
-
Cohen SX, Moulin M, Hashemolhosseini S, Kilian K, Wegner M, Müller CW. Structure of the GCM domain-DNA complex: a DNA-binding domain with a novel fold and mode of target site recognition. EMBO J 2003, 22:1835-1845. 10.1093/emboj/cdg182, 154474, 12682016.
-
(2003)
EMBO J
, vol.22
, pp. 1835-1845
-
-
Cohen, S.X.1
Moulin, M.2
Hashemolhosseini, S.3
Kilian, K.4
Wegner, M.5
Müller, C.W.6
-
53
-
-
0034634671
-
The Structure of a CREB bZIPmiddle dotSomatostatin CRE complex reveals the basis for selective dimerization and divalent cation-enhanced DNA Binding
-
Schumacher MA. The Structure of a CREB bZIPmiddle dotSomatostatin CRE complex reveals the basis for selective dimerization and divalent cation-enhanced DNA Binding. J Bioll Chem 2000, 275:35242-35247.
-
(2000)
J Bioll Chem
, vol.275
, pp. 35242-35247
-
-
Schumacher, M.A.1
-
54
-
-
0033785699
-
Structural basis for the diversity of DNA recognition by bZIP transcription factors
-
Fujii Y, Shimizu T, Toda T, Yanagida M, Hakoshima T. Structural basis for the diversity of DNA recognition by bZIP transcription factors. Nat Struct Mol Biol 2000, 7:889-893.
-
(2000)
Nat Struct Mol Biol
, vol.7
, pp. 889-893
-
-
Fujii, Y.1
Shimizu, T.2
Toda, T.3
Yanagida, M.4
Hakoshima, T.5
-
55
-
-
71949088553
-
Structural Basis of Alternative DNA Recognition by Maf Transcription Factors
-
10.1128/MCB.00708-09, 2786689, 19797082
-
Kurokawa H, Motohashi H, Sueno S, Kimura M, Takagawa H, Kanno Y, Yamamoto M, Tanaka T. Structural Basis of Alternative DNA Recognition by Maf Transcription Factors. Mol Cell Biol 2009, 29:6232-6244. 10.1128/MCB.00708-09, 2786689, 19797082.
-
(2009)
Mol Cell Biol
, vol.29
, pp. 6232-6244
-
-
Kurokawa, H.1
Motohashi, H.2
Sueno, S.3
Kimura, M.4
Takagawa, H.5
Kanno, Y.6
Yamamoto, M.7
Tanaka, T.8
-
56
-
-
37849019258
-
Crystal Structure of E47-NeuroD1/Beta2 bHLH Domain-DNA Complex: Heterodimer Selectivity and DNA Recognition
-
10.1021/bi701527r, 18069799
-
Longo A, Guanga GP, Rose RB. Crystal Structure of E47-NeuroD1/Beta2 bHLH Domain-DNA Complex: Heterodimer Selectivity and DNA Recognition. Biochemistry 2008, 47:218-229. 10.1021/bi701527r, 18069799.
-
(2008)
Biochemistry
, vol.47
, pp. 218-229
-
-
Longo, A.1
Guanga, G.P.2
Rose, R.B.3
-
57
-
-
27144484996
-
Structural basis for DNA bridging by barrier-to-autointegration factor
-
10.1038/nsmb989, 16155580
-
Bradley CM, Ronning DR, Ghirlando R, Craigie R, Dyda F. Structural basis for DNA bridging by barrier-to-autointegration factor. Nat Struct Mol Biol 2005, 12:935-936. 10.1038/nsmb989, 16155580.
-
(2005)
Nat Struct Mol Biol
, vol.12
, pp. 935-936
-
-
Bradley, C.M.1
Ronning, D.R.2
Ghirlando, R.3
Craigie, R.4
Dyda, F.5
-
58
-
-
30044434376
-
Structural basis for membrane anchorage of viral phi29 DNA during replication
-
10.1074/jbc.C500429200, 16275651
-
Albert A, Muñoz-Espín D, Jiménez M, Asensio JL, Hermoso JA, Salas M, Meijer WJJ. Structural basis for membrane anchorage of viral phi29 DNA during replication. J Biol Chem 2005, 280:42486-42488. 10.1074/jbc.C500429200, 16275651.
-
(2005)
J Biol Chem
, vol.280
, pp. 42486-42488
-
-
Albert, A.1
Muñoz-Espín, D.2
Jiménez, M.3
Asensio, J.L.4
Hermoso, J.A.5
Salas, M.6
Meijer, W.J.J.7
-
59
-
-
73249119294
-
Structural determinants of DNA binding by a P. falciparum ApiAP2 transcriptional regulator
-
10.1016/j.jmb.2009.11.004, 2813365, 19913037
-
Lindner SE, De Silva EK, Keck JL, Llinás M. Structural determinants of DNA binding by a P. falciparum ApiAP2 transcriptional regulator. J Mol Biol 2010, 395:558-567. 10.1016/j.jmb.2009.11.004, 2813365, 19913037.
-
(2010)
J Mol Biol
, vol.395
, pp. 558-567
-
-
Lindner, S.E.1
De Silva, E.K.2
Keck, J.L.3
Llinás, M.4
-
60
-
-
42949179170
-
Structure of the Staphylococcus aureus AgrA LytTR domain bound to DNA reveals a beta fold with an unusual mode of binding
-
10.1016/j.str.2008.02.011, 2430735, 18462677
-
Sidote DJ, Barbieri CM, Wu T, Stock AM. Structure of the Staphylococcus aureus AgrA LytTR domain bound to DNA reveals a beta fold with an unusual mode of binding. Structure 2008, 16:727-735. 10.1016/j.str.2008.02.011, 2430735, 18462677.
-
(2008)
Structure
, vol.16
, pp. 727-735
-
-
Sidote, D.J.1
Barbieri, C.M.2
Wu, T.3
Stock, A.M.4
-
61
-
-
37549052560
-
Segrosome structure revealed by a complex of ParR with centromere DNA
-
10.1038/nature06392, 18097417
-
Schumacher MA, Glover TC, Brzoska AJ, Jensen SO, Dunham TD, Skurray RA, Firth N. Segrosome structure revealed by a complex of ParR with centromere DNA. Nature 2007, 450:1268-1271. 10.1038/nature06392, 18097417.
-
(2007)
Nature
, vol.450
, pp. 1268-1271
-
-
Schumacher, M.A.1
Glover, T.C.2
Brzoska, A.J.3
Jensen, S.O.4
Dunham, T.D.5
Skurray, R.A.6
Firth, N.7
-
62
-
-
46649098392
-
Structural basis of the transcriptional regulation of the proline utilization regulon by multifunctional PutA
-
10.1016/j.jmb.2008.05.084, 2665032, 18586269
-
Zhou Y, Larson JD, Bottoms CA, Arturo EC, Henzl MT, Jenkins JL, Nix JC, Becker DF, Tanner JJ. Structural basis of the transcriptional regulation of the proline utilization regulon by multifunctional PutA. J Mol Biol 2008, 381:174-188. 10.1016/j.jmb.2008.05.084, 2665032, 18586269.
-
(2008)
J Mol Biol
, vol.381
, pp. 174-188
-
-
Zhou, Y.1
Larson, J.D.2
Bottoms, C.A.3
Arturo, E.C.4
Henzl, M.T.5
Jenkins, J.L.6
Nix, J.C.7
Becker, D.F.8
Tanner, J.J.9
-
63
-
-
34948892722
-
Recognition of DNA damage by the Rad4 nucleotide excision repair protein
-
10.1038/nature06155, 17882165
-
Min J, Pavletich NP. Recognition of DNA damage by the Rad4 nucleotide excision repair protein. Nature 2007, 449:570-575. 10.1038/nature06155, 17882165.
-
(2007)
Nature
, vol.449
, pp. 570-575
-
-
Min, J.1
Pavletich, N.P.2
-
64
-
-
0035833552
-
Structure of the Ku heterodimer bound to DNA and its implications for double-strand break repair
-
10.1038/35088000, 11493912
-
Walker JR, Corpina RA, Goldberg J. Structure of the Ku heterodimer bound to DNA and its implications for double-strand break repair. Nature 2001, 412:607-614. 10.1038/35088000, 11493912.
-
(2001)
Nature
, vol.412
, pp. 607-614
-
-
Walker, J.R.1
Corpina, R.A.2
Goldberg, J.3
-
65
-
-
39549090166
-
MeCP2 Binding to DNA Depends upon Hydration at Methyl-CpG
-
10.1016/j.molcel.2007.12.028, 18313390
-
Ho KL, McNae IW, Schmiedeberg L, Klose RJ, Bird AP, Walkinshaw MD. MeCP2 Binding to DNA Depends upon Hydration at Methyl-CpG. Mol Cell 2008, 29:525-531. 10.1016/j.molcel.2007.12.028, 18313390.
-
(2008)
Mol Cell
, vol.29
, pp. 525-531
-
-
Ho, K.L.1
McNae, I.W.2
Schmiedeberg, L.3
Klose, R.J.4
Bird, A.P.5
Walkinshaw, M.D.6
-
66
-
-
33646077199
-
The Structure of Phage 29 Transcription Regulator p4-DNA Complex Reveals an N-Hook Motif for DNA Binding
-
10.1016/j.molcel.2006.02.019, 16600871
-
Badia D, Camacho A, Pérez-Lago L, Escandon C, Salas M, Coll M. The Structure of Phage 29 Transcription Regulator p4-DNA Complex Reveals an N-Hook Motif for DNA Binding. Mol cell 2006, 22:73-81. 10.1016/j.molcel.2006.02.019, 16600871.
-
(2006)
Mol cell
, vol.22
, pp. 73-81
-
-
Badia, D.1
Camacho, A.2
Pérez-Lago, L.3
Escandon, C.4
Salas, M.5
Coll, M.6
-
67
-
-
34247555529
-
DNA damage recognition and repair by 3-methyladenine DNA glycosylase I (TAG)
-
10.1038/sj.emboj.7601649, 1864966, 17410210
-
Metz AH, Hollis T, Eichman BF. DNA damage recognition and repair by 3-methyladenine DNA glycosylase I (TAG). EMBO J 2007, 26:2411-2420. 10.1038/sj.emboj.7601649, 1864966, 17410210.
-
(2007)
EMBO J
, vol.26
, pp. 2411-2420
-
-
Metz, A.H.1
Hollis, T.2
Eichman, B.F.3
-
68
-
-
33646363729
-
The structure of I-CeuI homing endonuclease: Evolving asymmetric DNA recognition from a symmetric protein scaffold
-
10.1016/j.str.2006.03.009, 16698548
-
Spiegel PC, Chevalier B, Sussman D, Turmel M, Lemieux C, Stoddard BL. The structure of I-CeuI homing endonuclease: Evolving asymmetric DNA recognition from a symmetric protein scaffold. Structure 2006, 14:869-880. 10.1016/j.str.2006.03.009, 16698548.
-
(2006)
Structure
, vol.14
, pp. 869-880
-
-
Spiegel, P.C.1
Chevalier, B.2
Sussman, D.3
Turmel, M.4
Lemieux, C.5
Stoddard, B.L.6
-
69
-
-
4143108003
-
DNA binding and cleavage by the HNH homing endonuclease I-HmuI
-
10.1016/j.jmb.2004.07.032, 15313606
-
Shen BW, Landthaler M, Shub DA, Stoddard BL. DNA binding and cleavage by the HNH homing endonuclease I-HmuI. J Mol Biol 2004, 342:43-56. 10.1016/j.jmb.2004.07.032, 15313606.
-
(2004)
J Mol Biol
, vol.342
, pp. 43-56
-
-
Shen, B.W.1
Landthaler, M.2
Shub, D.A.3
Stoddard, B.L.4
-
70
-
-
0033841114
-
RecQ-like helicases: the DNA replication checkpoint connection
-
Frei C, Gasser SM. RecQ-like helicases: the DNA replication checkpoint connection. J Cell Sci 2000, 113(Pt 15):2641-2646.
-
(2000)
J Cell Sci
, vol.113
, Issue.PART 15
, pp. 2641-2646
-
-
Frei, C.1
Gasser, S.M.2
-
71
-
-
77249173864
-
The C-terminal lysine of Ogg2 DNA glycosylases is a major molecular determinant for guanine/8-oxoguanine distinction
-
10.1016/j.jmb.2010.01.024, 3085930, 20083120
-
Faucher F, Wallace SS, Doublié S. The C-terminal lysine of Ogg2 DNA glycosylases is a major molecular determinant for guanine/8-oxoguanine distinction. J Mol Biol 2010, 397:46-56. 10.1016/j.jmb.2010.01.024, 3085930, 20083120.
-
(2010)
J Mol Biol
, vol.397
, pp. 46-56
-
-
Faucher, F.1
Wallace, S.S.2
Doublié, S.3
-
72
-
-
14044252836
-
Crystal structures of type II restriction endonuclease EcoO109I and its complex with cognate DNA
-
10.1074/jbc.M411684200, 15590682
-
Hashimoto H, Shimizu T, Imasaki T, Kato M, Shichijo N, Kita K, Sato M. Crystal structures of type II restriction endonuclease EcoO109I and its complex with cognate DNA. J Biol Chem 2005, 280:5605-5610. 10.1074/jbc.M411684200, 15590682.
-
(2005)
J Biol Chem
, vol.280
, pp. 5605-5610
-
-
Hashimoto, H.1
Shimizu, T.2
Imasaki, T.3
Kato, M.4
Shichijo, N.5
Kita, K.6
Sato, M.7
-
73
-
-
16344394253
-
Structure of an XPF endonuclease with and without DNA suggests a model for substrate recognition
-
10.1038/sj.emboj.7600581, 554130, 15719018
-
Newman M, Murray-Rust J, Lally J, Rudolf J, Fadden A, Knowles PP, White MF, McDonald NQ. Structure of an XPF endonuclease with and without DNA suggests a model for substrate recognition. EMBO J 2005, 24:895-905. 10.1038/sj.emboj.7600581, 554130, 15719018.
-
(2005)
EMBO J
, vol.24
, pp. 895-905
-
-
Newman, M.1
Murray-Rust, J.2
Lally, J.3
Rudolf, J.4
Fadden, A.5
Knowles, P.P.6
White, M.F.7
McDonald, N.Q.8
-
74
-
-
34948885722
-
Crystal structure of T4 endonuclease VII resolving a Holliday junction
-
10.1038/nature06152, 17873859
-
Biertümpfel C, Yang W, Suck D. Crystal structure of T4 endonuclease VII resolving a Holliday junction. Nature 2007, 449:616-620. 10.1038/nature06152, 17873859.
-
(2007)
Nature
, vol.449
, pp. 616-620
-
-
Biertümpfel, C.1
Yang, W.2
Suck, D.3
-
75
-
-
42649090454
-
The recognition domain of the BpuJI restriction endonuclease in complex with cognate DNA at 1.3-A resolution
-
10.1016/j.jmb.2008.03.041, 18433771
-
Sukackaite R, Grazulis S, Bochtler M, Siksnys V. The recognition domain of the BpuJI restriction endonuclease in complex with cognate DNA at 1.3-A resolution. J Mol Biol 2008, 378:1084-1093. 10.1016/j.jmb.2008.03.041, 18433771.
-
(2008)
J Mol Biol
, vol.378
, pp. 1084-1093
-
-
Sukackaite, R.1
Grazulis, S.2
Bochtler, M.3
Siksnys, V.4
-
76
-
-
0033229820
-
Crystal structure of MunI restriction endonuclease in complex with cognate DNA at 1.7 A resolution
-
10.1093/emboj/18.21.5805, 1171646, 10545092
-
Deibert M, Grazulis S, Janulaitis A, Siksnys V, Huber R. Crystal structure of MunI restriction endonuclease in complex with cognate DNA at 1.7 A resolution. EMBO J 1999, 18:5805-5816. 10.1093/emboj/18.21.5805, 1171646, 10545092.
-
(1999)
EMBO J
, vol.18
, pp. 5805-5816
-
-
Deibert, M.1
Grazulis, S.2
Janulaitis, A.3
Siksnys, V.4
Huber, R.5
-
77
-
-
0035096078
-
Restriction enzyme BsoBI-DNA complex: a tunnel for recognition of degenerate DNA sequences and potential histidine catalysis
-
10.1016/S0969-2126(01)00564-0, 11250198
-
van der Woerd MJ, Pelletier JJ, Xu S, Friedman AM. Restriction enzyme BsoBI-DNA complex: a tunnel for recognition of degenerate DNA sequences and potential histidine catalysis. Structure 2001, 9:133-144. 10.1016/S0969-2126(01)00564-0, 11250198.
-
(2001)
Structure
, vol.9
, pp. 133-144
-
-
van der Woerd, M.J.1
Pelletier, J.J.2
Xu, S.3
Friedman, A.M.4
-
78
-
-
0032530311
-
Crystal structure of restriction endonuclease BglI bound to its interrupted DNA recognition sequence
-
10.1093/emboj/17.18.5466, 1170872, 9736624
-
Newman M, Lunnen K, Wilson G, Greci J, Schildkraut I, Phillips SE. Crystal structure of restriction endonuclease BglI bound to its interrupted DNA recognition sequence. EMBO J 1998, 17:5466-5476. 10.1093/emboj/17.18.5466, 1170872, 9736624.
-
(1998)
EMBO J
, vol.17
, pp. 5466-5476
-
-
Newman, M.1
Lunnen, K.2
Wilson, G.3
Greci, J.4
Schildkraut, I.5
Phillips, S.E.6
-
79
-
-
0033818703
-
Structure of the tetrameric restriction endonuclease NgoMIV in complex with cleaved DNA
-
10.1038/79032, 10966652
-
Deibert M, Grazulis S, Sasnauskas G, Siksnys V, Huber R. Structure of the tetrameric restriction endonuclease NgoMIV in complex with cleaved DNA. Nat Struct Biol 2000, 7:792-799. 10.1038/79032, 10966652.
-
(2000)
Nat Struct Biol
, vol.7
, pp. 792-799
-
-
Deibert, M.1
Grazulis, S.2
Sasnauskas, G.3
Siksnys, V.4
Huber, R.5
-
80
-
-
0034885432
-
Structure of NaeI-DNA complex reveals dual-mode DNA recognition and complete dimer rearrangement
-
10.1038/90366, 11473254
-
Huai Q, Colandene JD, Topal MD, Ke H. Structure of NaeI-DNA complex reveals dual-mode DNA recognition and complete dimer rearrangement. Nat Struct Biol 2001, 8:665-669. 10.1038/90366, 11473254.
-
(2001)
Nat Struct Biol
, vol.8
, pp. 665-669
-
-
Huai, Q.1
Colandene, J.D.2
Topal, M.D.3
Ke, H.4
-
81
-
-
0036203066
-
Structure of the bacterial RNA polymerase promoter specificity sigma subunit
-
10.1016/S1097-2765(02)00470-7, 11931761
-
Campbell EA, Muzzin O, Chlenov M, Sun JL, Olson CA, Weinman O, Trester-Zedlitz ML, Darst SA. Structure of the bacterial RNA polymerase promoter specificity sigma subunit. Mol Cell 2002, 9:527-539. 10.1016/S1097-2765(02)00470-7, 11931761.
-
(2002)
Mol Cell
, vol.9
, pp. 527-539
-
-
Campbell, E.A.1
Muzzin, O.2
Chlenov, M.3
Sun, J.L.4
Olson, C.A.5
Weinman, O.6
Trester-Zedlitz, M.L.7
Darst, S.A.8
-
82
-
-
1242339574
-
The nuclease domain of adeno-associated virus rep coordinates replication initiation using two distinct DNA recognition interfaces
-
10.1016/S1097-2765(04)00023-1, 14967147
-
Hickman AB, Ronning DR, Perez ZN, Kotin RM, Dyda F. The nuclease domain of adeno-associated virus rep coordinates replication initiation using two distinct DNA recognition interfaces. Mol Cell 2004, 13:403-414. 10.1016/S1097-2765(04)00023-1, 14967147.
-
(2004)
Mol Cell
, vol.13
, pp. 403-414
-
-
Hickman, A.B.1
Ronning, D.R.2
Perez, Z.N.3
Kotin, R.M.4
Dyda, F.5
-
83
-
-
9644289536
-
Human DNA ligase I completely encircles and partially unwinds nicked DNA
-
10.1038/nature03082, 15565146
-
Pascal JM, O'Brien PJ, Tomkinson AE, Ellenberger T. Human DNA ligase I completely encircles and partially unwinds nicked DNA. Nature 2004, 432:473-478. 10.1038/nature03082, 15565146.
-
(2004)
Nature
, vol.432
, pp. 473-478
-
-
Pascal, J.M.1
O'Brien, P.J.2
Tomkinson, A.E.3
Ellenberger, T.4
-
84
-
-
35349028355
-
Structure of a NHEJ polymerase-mediated DNA synaptic complex
-
10.1126/science.1145112, 17947582
-
Brissett NC, Pitcher RS, Juarez R, Picher AJ, Green AJ, Dafforn TR, Fox GC, Blanco L, Doherty AJ. Structure of a NHEJ polymerase-mediated DNA synaptic complex. Science 2007, 318:456-459. 10.1126/science.1145112, 17947582.
-
(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
-
85
-
-
34247279304
-
Last stop on the road to repair: structure of E. coli DNA ligase bound to nicked DNA-adenylate
-
10.1016/j.molcel.2007.02.026, 17466627
-
Nandakumar J, Nair PA, Shuman S. Last stop on the road to repair: structure of E. coli DNA ligase bound to nicked DNA-adenylate. Mol Cell 2007, 26:257-271. 10.1016/j.molcel.2007.02.026, 17466627.
-
(2007)
Mol Cell
, vol.26
, pp. 257-271
-
-
Nandakumar, J.1
Nair, P.A.2
Shuman, S.3
-
86
-
-
18844457346
-
X-ray structures of the Sulfolobus solfataricus SWI2/SNF2 ATPase core and its complex with DNA
-
10.1016/j.cell.2005.03.026, 15882619
-
Dürr H, Körner C, Müller M, Hickmann V, Hopfner K. X-ray structures of the Sulfolobus solfataricus SWI2/SNF2 ATPase core and its complex with DNA. Cell 2005, 121:363-373. 10.1016/j.cell.2005.03.026, 15882619.
-
(2005)
Cell
, vol.121
, pp. 363-373
-
-
Dürr, H.1
Körner, C.2
Müller, M.3
Hickmann, V.4
Hopfner, K.5
-
87
-
-
28644435380
-
A view of consecutive binding events from structures of tetrameric endonuclease SfiI bound to DNA
-
10.1038/sj.emboj.7600880, 1356319, 16308566
-
Vanamee ES, Viadiu H, Kucera R, Dorner L, Picone S, Schildkraut I, Aggarwal AK. A view of consecutive binding events from structures of tetrameric endonuclease SfiI bound to DNA. EMBO J 2005, 24:4198-4208. 10.1038/sj.emboj.7600880, 1356319, 16308566.
-
(2005)
EMBO J
, vol.24
, pp. 4198-4208
-
-
Vanamee, E.S.1
Viadiu, H.2
Kucera, R.3
Dorner, L.4
Picone, S.5
Schildkraut, I.6
Aggarwal, A.K.7
-
88
-
-
34247863978
-
Restriction endonuclease MvaI is a monomer that recognizes its target sequence asymmetrically
-
10.1093/nar/gkm064, 1874612, 17344322
-
Kaus-Drobek M, Czapinska H, Sokołowska M, Tamulaitis G, Szczepanowski RH, Urbanke C, Siksnys V, Bochtler M. Restriction endonuclease MvaI is a monomer that recognizes its target sequence asymmetrically. Nucleic Acids Res 2007, 35:2035-2046. 10.1093/nar/gkm064, 1874612, 17344322.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 2035-2046
-
-
Kaus-Drobek, M.1
Czapinska, H.2
Sokołowska, M.3
Tamulaitis, G.4
Szczepanowski, R.H.5
Urbanke, C.6
Siksnys, V.7
Bochtler, M.8
-
89
-
-
49349104892
-
Molecular mechanism of sequence-directed DNA loading and translocation by FtsK
-
10.1016/j.molcel.2008.05.027, 2570039, 18722176
-
Löwe J, Ellonen A, Allen MD, Atkinson C, Sherratt DJ, Grainge I. Molecular mechanism of sequence-directed DNA loading and translocation by FtsK. Mol Cell 2008, 31:498-509. 10.1016/j.molcel.2008.05.027, 2570039, 18722176.
-
(2008)
Mol Cell
, vol.31
, pp. 498-509
-
-
Löwe, J.1
Ellonen, A.2
Allen, M.D.3
Atkinson, C.4
Sherratt, D.J.5
Grainge, I.6
-
90
-
-
71049141657
-
Structural mechanisms for the 5'-CCWGG sequence recognition by the N- and C-terminal domains of EcoRII
-
10.1093/nar/gkp699, 2770665, 19729506
-
Golovenko D, Manakova E, Tamulaitiene G, Grazulis S, Siksnys V. Structural mechanisms for the 5'-CCWGG sequence recognition by the N- and C-terminal domains of EcoRII. Nucleic Acids Res 2009, 37:6613-6624. 10.1093/nar/gkp699, 2770665, 19729506.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. 6613-6624
-
-
Golovenko, D.1
Manakova, E.2
Tamulaitiene, G.3
Grazulis, S.4
Siksnys, V.5
-
91
-
-
41449117713
-
Structures of the rare-cutting restriction endonuclease NotI reveal a unique metal binding fold involved in DNA binding
-
10.1016/j.str.2008.01.017, 2390919, 18400177
-
Lambert AR, Sussman D, Shen B, Maunus R, Nix J, Samuelson J, Xu S, Stoddard BL. Structures of the rare-cutting restriction endonuclease NotI reveal a unique metal binding fold involved in DNA binding. Structure 2008, 16:558-569. 10.1016/j.str.2008.01.017, 2390919, 18400177.
-
(2008)
Structure
, vol.16
, pp. 558-569
-
-
Lambert, A.R.1
Sussman, D.2
Shen, B.3
Maunus, R.4
Nix, J.5
Samuelson, J.6
Xu, S.7
Stoddard, B.L.8
-
92
-
-
37649016453
-
Structure of a sliding clamp on DNA
-
10.1016/j.cell.2007.11.045, 2443641, 18191219
-
Georgescu RE, Kim S, Yurieva O, Kuriyan J, Kong X, O'Donnell M. Structure of a sliding clamp on DNA. Cell 2008, 132:43-54. 10.1016/j.cell.2007.11.045, 2443641, 18191219.
-
(2008)
Cell
, vol.132
, pp. 43-54
-
-
Georgescu, R.E.1
Kim, S.2
Yurieva, O.3
Kuriyan, J.4
Kong, X.5
O'Donnell, M.6
|