-
1
-
-
67650287695
-
In the light of directed evolution: pathways of adaptive protein evolution
-
Bloom J.D., Arnold F.H. In the light of directed evolution: pathways of adaptive protein evolution. Proc. Natl Acad. Sci. USA 2009, 106:9995-10000.
-
(2009)
Proc. Natl Acad. Sci. USA
, vol.106
, pp. 9995-10000
-
-
Bloom, J.D.1
Arnold, F.H.2
-
2
-
-
34548018528
-
Mechanistic approaches to the study of evolution: the functional synthesis
-
Dean A.M., Thornton J.W. Mechanistic approaches to the study of evolution: the functional synthesis. Nat. Rev. Genet. 2007, 8:675-688.
-
(2007)
Nat. Rev. Genet.
, vol.8
, pp. 675-688
-
-
Dean, A.M.1
Thornton, J.W.2
-
3
-
-
70349470948
-
Structural and functional constraints in the evolution of protein families
-
Worth C.L., Gong S., Blundell T.L. Structural and functional constraints in the evolution of protein families. Nat. Rev. Mol. Cell Biol. 2009, 10:709-720.
-
(2009)
Nat. Rev. Mol. Cell Biol.
, vol.10
, pp. 709-720
-
-
Worth, C.L.1
Gong, S.2
Blundell, T.L.3
-
4
-
-
0001142723
-
The π-helix-a hydrogen bonded configuration of the polypeptide chain
-
Low B.W., Baybutt R.B. The π-helix-a hydrogen bonded configuration of the polypeptide chain. J. Am. Chem. Soc. 1952, 74:5806-5807.
-
(1952)
J. Am. Chem. Soc.
, vol.74
, pp. 5806-5807
-
-
Low, B.W.1
Baybutt, R.B.2
-
6
-
-
0036276409
-
Occurrence, conformational features and amino acid propensities for the π-helix
-
Fodje M.N., Al-Karadaghi S. Occurrence, conformational features and amino acid propensities for the π-helix. Protein Eng. 2002, 15:353-358.
-
(2002)
Protein Eng.
, vol.15
, pp. 353-358
-
-
Fodje, M.N.1
Al-Karadaghi, S.2
-
8
-
-
0033978466
-
The π-helix translates structure into function
-
Weaver T.M. The π-helix translates structure into function. Protein Sci. 2000, 9:201-206.
-
(2000)
Protein Sci.
, vol.9
, pp. 201-206
-
-
Weaver, T.M.1
-
11
-
-
0034649410
-
Transitions from α to π helix observed in molecular dynamics simulations of synthetic peptides
-
Lee K.H., Benson D.R., Kuczera K. Transitions from α to π helix observed in molecular dynamics simulations of synthetic peptides. Biochemistry 2000, 39:13737-13747.
-
(2000)
Biochemistry
, vol.39
, pp. 13737-13747
-
-
Lee, K.H.1
Benson, D.R.2
Kuczera, K.3
-
12
-
-
0038054912
-
Force field influence on the observation of π-helical protein structures in molecular dynamics simulations
-
Feig M., MacKerell A.D., Brooks C.L. Force field influence on the observation of π-helical protein structures in molecular dynamics simulations. J. Phys. Chem. B 2003, 107:2831-2836.
-
(2003)
J. Phys. Chem. B
, vol.107
, pp. 2831-2836
-
-
Feig, M.1
MacKerell, A.D.2
Brooks, C.L.3
-
13
-
-
0027467033
-
The α-aneurism: a structural motif revealed in an insertion mutant of staphylococcal nuclease
-
Keefe L.J., Sondek J., Shortle D., Lattman E.E. The α-aneurism: a structural motif revealed in an insertion mutant of staphylococcal nuclease. Proc. Natl Acad. Sci. USA 1993, 90:3275-3279.
-
(1993)
Proc. Natl Acad. Sci. USA
, vol.90
, pp. 3275-3279
-
-
Keefe, L.J.1
Sondek, J.2
Shortle, D.3
Lattman, E.E.4
-
14
-
-
0027497604
-
How amino-acid insertions are allowed in an α-helix of T4 lysozyme
-
Heinz D.W., Baase W.A., Dahlquist F.W., Matthews B.W. How amino-acid insertions are allowed in an α-helix of T4 lysozyme. Nature 1993, 361:561-564.
-
(1993)
Nature
, vol.361
, pp. 561-564
-
-
Heinz, D.W.1
Baase, W.A.2
Dahlquist, F.W.3
Matthews, B.W.4
-
15
-
-
1642534352
-
Structural and functional characterization of π-bulges and other short intrahelical deformations
-
Cartailler J.P., Luecke H. Structural and functional characterization of π-bulges and other short intrahelical deformations. Structure 2004, 12:133-144.
-
(2004)
Structure
, vol.12
, pp. 133-144
-
-
Cartailler, J.P.1
Luecke, H.2
-
16
-
-
0034695416
-
Role of an α-helical bulge in the yeast heat shock transcription factor
-
Hardy J.A., Walsh S.T., Nelson H.C. Role of an α-helical bulge in the yeast heat shock transcription factor. J. Mol. Biol. 2000, 295:393-409.
-
(2000)
J. Mol. Biol.
, vol.295
, pp. 393-409
-
-
Hardy, J.A.1
Walsh, S.T.2
Nelson, H.C.3
-
17
-
-
0020997912
-
Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features
-
Kabsch W., Sander C. Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers 1983, 22:2577-2637.
-
(1983)
Biopolymers
, vol.22
, pp. 2577-2637
-
-
Kabsch, W.1
Sander, C.2
-
18
-
-
0029619259
-
Knowledge-based protein secondary structure assignment
-
Frishman D., Argos P. Knowledge-based protein secondary structure assignment. Proteins 1995, 23:566-579.
-
(1995)
Proteins
, vol.23
, pp. 566-579
-
-
Frishman, D.1
Argos, P.2
-
19
-
-
56649103902
-
Searching protein structure databases with DaliLite v.3
-
Holm L., Kaariainen S., Rosenstrom P., Schenkel A. Searching protein structure databases with DaliLite v.3. Bioinformatics 2008, 24:2780-2781.
-
(2008)
Bioinformatics
, vol.24
, pp. 2780-2781
-
-
Holm, L.1
Kaariainen, S.2
Rosenstrom, P.3
Schenkel, A.4
-
22
-
-
0036909547
-
Insights into trehalose synthesis provided by the structure of the retaining glucosyltransferase OtsA
-
Gibson R.P., Turkenburg J.P., Charnock S.J., Lloyd R., Davies G.J. Insights into trehalose synthesis provided by the structure of the retaining glucosyltransferase OtsA. Chem. Biol. 2002, 9:1337-1346.
-
(2002)
Chem. Biol.
, vol.9
, pp. 1337-1346
-
-
Gibson, R.P.1
Turkenburg, J.P.2
Charnock, S.J.3
Lloyd, R.4
Davies, G.J.5
-
23
-
-
0027234778
-
Role of tyrosine residues in Hg(II) detoxification by mercuric reductase from Bacillus sp. strain RC607
-
Rennex D., Cummings R.T., Pickett M., Walsh C.T., Bradley M. Role of tyrosine residues in Hg(II) detoxification by mercuric reductase from Bacillus sp. strain RC607. Biochemistry 1993, 32:7475-7478.
-
(1993)
Biochemistry
, vol.32
, pp. 7475-7478
-
-
Rennex, D.1
Cummings, R.T.2
Pickett, M.3
Walsh, C.T.4
Bradley, M.5
-
24
-
-
0033609904
-
Structure of bacteriorhodopsin at 1.55 Å resolution
-
Luecke H., Schobert B., Richter H.T., Cartailler J.P., Lanyi J.K. Structure of bacteriorhodopsin at 1.55 Å resolution. J. Mol. Biol. 1999, 291:899-911.
-
(1999)
J. Mol. Biol.
, vol.291
, pp. 899-911
-
-
Luecke, H.1
Schobert, B.2
Richter, H.T.3
Cartailler, J.P.4
Lanyi, J.K.5
-
25
-
-
0034717007
-
Structure of the light-driven chloride pump halorhodopsin at 1.8 Å resolution
-
Kolbe M., Besir H., Essen L.O., Oesterhelt D. Structure of the light-driven chloride pump halorhodopsin at 1.8 Å resolution. Science 2000, 288:1390-1396.
-
(2000)
Science
, vol.288
, pp. 1390-1396
-
-
Kolbe, M.1
Besir, H.2
Essen, L.O.3
Oesterhelt, D.4
-
26
-
-
13444265992
-
Crystal structure of a novel Plasmodium falciparum 1-Cys peroxiredoxin
-
Sarma G.N., Nickel C., Rahlfs S., Fischer M., Becker K., Karplus P.A. Crystal structure of a novel Plasmodium falciparum 1-Cys peroxiredoxin. J. Mol. Biol. 2005, 346:1021-1034.
-
(2005)
J. Mol. Biol.
, vol.346
, pp. 1021-1034
-
-
Sarma, G.N.1
Nickel, C.2
Rahlfs, S.3
Fischer, M.4
Becker, K.5
Karplus, P.A.6
-
27
-
-
17744371868
-
Product bound structures of the soluble methane monooxygenase hydroxylase from Methylococcus capsulatus (Bath): protein motion in the α-subunit
-
Sazinsky M.H., Lippard S.J. Product bound structures of the soluble methane monooxygenase hydroxylase from Methylococcus capsulatus (Bath): protein motion in the α-subunit. J. Am. Chem. Soc. 2005, 127:5814-5825.
-
(2005)
J. Am. Chem. Soc.
, vol.127
, pp. 5814-5825
-
-
Sazinsky, M.H.1
Lippard, S.J.2
-
28
-
-
58049215418
-
Structural consequences of effector protein complex formation in a diiron hydroxylase
-
Bailey L.J., McCoy J.G., Phillips G.N., Fox B.G. Structural consequences of effector protein complex formation in a diiron hydroxylase. Proc. Natl Acad. Sci. USA 2008, 105:19194-19198.
-
(2008)
Proc. Natl Acad. Sci. USA
, vol.105
, pp. 19194-19198
-
-
Bailey, L.J.1
McCoy, J.G.2
Phillips, G.N.3
Fox, B.G.4
-
29
-
-
67650732640
-
Kinetic characterization of the soluble butane monooxygenase from Thauera butanivorans, formerly 'Pseudomonas butanovora'
-
Cooley R.B., Dubbels B.L., Sayavedra-Soto L.A., Bottomley P.J., Arp D.J. Kinetic characterization of the soluble butane monooxygenase from Thauera butanivorans, formerly 'Pseudomonas butanovora'. Microbiology 2009, 155:2086-2096.
-
(2009)
Microbiology
, vol.155
, pp. 2086-2096
-
-
Cooley, R.B.1
Dubbels, B.L.2
Sayavedra-Soto, L.A.3
Bottomley, P.J.4
Arp, D.J.5
-
30
-
-
0028961335
-
SCOP: a structural classification of proteins database for the investigation of sequences and structures
-
Murzin A.G., Brenner S.E., 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
-
31
-
-
0031763106
-
Iron storage in bacteria
-
Academic Press, San Diego, CA, R.K. Poole (Ed.)
-
Andrews S. Iron storage in bacteria. Advances in Microbial Physiology 1998, 40:281-349. Academic Press, San Diego, CA. R.K. Poole (Ed.).
-
(1998)
Advances in Microbial Physiology
, vol.40
, pp. 281-349
-
-
Andrews, S.1
-
32
-
-
0035800902
-
Could a diiron-containing four-helix-bundle protein have been a primitive oxygen reductase?
-
Gomes C.M., Le Gall J., Xavier A.V., Teixeira M. Could a diiron-containing four-helix-bundle protein have been a primitive oxygen reductase?. ChemBioChem 2001, 2:583-587.
-
(2001)
ChemBioChem
, vol.2
, pp. 583-587
-
-
Gomes, C.M.1
Le Gall, J.2
Xavier, A.V.3
Teixeira, M.4
-
34
-
-
23044449394
-
An archaeal antioxidant: characterization of a Dps-like protein from Sulfolobus solfataricus
-
Wiedenheft B., Mosolf J., Willits D., Yeager M., Dryden K.A., Young M., Douglas T. An archaeal antioxidant: characterization of a Dps-like protein from Sulfolobus solfataricus. Proc. Natl Acad. Sci. USA 2005, 102:10551-10556.
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 10551-10556
-
-
Wiedenheft, B.1
Mosolf, J.2
Willits, D.3
Yeager, M.4
Dryden, K.A.5
Young, M.6
Douglas, T.7
-
35
-
-
0026318136
-
Intrapeptide sequence homology in rubrerythrin from Desulfovibrio vulgaris: identification of potential ligands to the diiron site
-
Kurtz D.M., Prickril B.C. Intrapeptide sequence homology in rubrerythrin from Desulfovibrio vulgaris: identification of potential ligands to the diiron site. Biochem. Biophys. Res. Commun. 1991, 181:337-341.
-
(1991)
Biochem. Biophys. Res. Commun.
, vol.181
, pp. 337-341
-
-
Kurtz, D.M.1
Prickril, B.C.2
-
37
-
-
65249133078
-
A Mycobacterium tuberculosis ligand-binding Mn/Fe protein reveals a new cofactor in a remodeled R2-protein scaffold
-
Andersson C.S., Hogbom M. A Mycobacterium tuberculosis ligand-binding Mn/Fe protein reveals a new cofactor in a remodeled R2-protein scaffold. Proc. Natl Acad. Sci. USA 2009, 106:5633-5638.
-
(2009)
Proc. Natl Acad. Sci. USA
, vol.106
, pp. 5633-5638
-
-
Andersson, C.S.1
Hogbom, M.2
-
38
-
-
3042728737
-
The radical site in chlamydial ribonucleotide reductase defines a new R2 subclass
-
Hogbom M., Stenmark P., Voevodskaya N., McClarty G., Graslund A., Nordlund P. The radical site in chlamydial ribonucleotide reductase defines a new R2 subclass. Science 2004, 305:245-248.
-
(2004)
Science
, vol.305
, pp. 245-248
-
-
Hogbom, M.1
Stenmark, P.2
Voevodskaya, N.3
McClarty, G.4
Graslund, A.5
Nordlund, P.6
-
39
-
-
0014842661
-
IUPAC-IUB Commission on Biochemical Nomenclature. Abbreviations and symbols for the description of the conformation of polypeptide chains. Tentative rules (1969)
-
IUPAC
-
IUPAC IUPAC-IUB Commission on Biochemical Nomenclature. Abbreviations and symbols for the description of the conformation of polypeptide chains. Tentative rules (1969). Biochemistry 1970, 9:3471-3479.
-
(1970)
Biochemistry
, vol.9
, pp. 3471-3479
-
-
-
40
-
-
0043180474
-
PISCES: a protein sequence culling server
-
Wang G., Dunbrack R.L. PISCES: a protein sequence culling server. Bioinformatics 2003, 19:1589-1591.
-
(2003)
Bioinformatics
, vol.19
, pp. 1589-1591
-
-
Wang, G.1
Dunbrack, R.L.2
-
41
-
-
0033954256
-
The Protein Data Bank
-
Berman H.M., Westbrook J., Feng Z., Gilliland G., Bhat T.N., Weissig H., et al. The Protein Data Bank. Nucleic Acids Res. 2000, 28:235-242.
-
(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
-
42
-
-
0027968068
-
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
-
Thompson J.D., Higgins D.G., Gibson T.J. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 1994, 22:4673-4680.
-
(1994)
Nucleic Acids Res.
, vol.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Higgins, D.G.2
Gibson, T.J.3
-
43
-
-
0026691182
-
The rapid generation of mutation data matrices from protein sequences
-
Jones D.T., Taylor W.R., Thornton J.M. The rapid generation of mutation data matrices from protein sequences. Comput. Appl. Biosci. 1992, 8:275-282.
-
(1992)
Comput. Appl. Biosci.
, vol.8
, pp. 275-282
-
-
Jones, D.T.1
Taylor, W.R.2
Thornton, J.M.3
|