-
1
-
-
36549021676
-
Crosstalk between the protein surface and hydrophobic core in a core-swapped fibronectin type III domain
-
K.S. Billings, R.B. Best, T.J. Rutherford, and J. Clarke Crosstalk between the protein surface and hydrophobic core in a core-swapped fibronectin type III domain J. Mol. Biol. 375 2008 560 571
-
(2008)
J. Mol. Biol.
, vol.375
, pp. 560-571
-
-
Billings, K.S.1
Best, R.B.2
Rutherford, T.J.3
Clarke, J.4
-
2
-
-
25144507750
-
Engineering stabilising beta-sheet interactions into a conformationally flexible region of the folding transition state of ubiquitin
-
R. Bofill, and M.S. Searle Engineering stabilising beta-sheet interactions into a conformationally flexible region of the folding transition state of ubiquitin J. Mol. Biol. 353 2005 373 384
-
(2005)
J. Mol. Biol.
, vol.353
, pp. 373-384
-
-
Bofill, R.1
Searle, M.S.2
-
3
-
-
77951529848
-
Therapeutic antibodies for autoimmunity and inflammation
-
A.C. Chan, and P.J. Carter Therapeutic antibodies for autoimmunity and inflammation Nat. Rev. Immunol. 10 2010 301 316
-
(2010)
Nat. Rev. Immunol.
, vol.10
, pp. 301-316
-
-
Chan, A.C.1
Carter, P.J.2
-
4
-
-
0035793212
-
The folding nucleus of a fibronectin type III domain is composed of core residues of the immunoglobulin-like fold
-
E. Cota, A. Steward, S.B. Fowler, and J. Clarke The folding nucleus of a fibronectin type III domain is composed of core residues of the immunoglobulin-like fold J. Mol. Biol. 305 2001 1185 1194
-
(2001)
J. Mol. Biol.
, vol.305
, pp. 1185-1194
-
-
Cota, E.1
Steward, A.2
Fowler, S.B.3
Clarke, J.4
-
5
-
-
50249132634
-
Antibody therapeutics, antibody engineering, and the merits of protein stability
-
S.J. Demarest, and S.M. Glaser Antibody therapeutics, antibody engineering, and the merits of protein stability Curr. Opin. Drug Discov. Devel. 11 2008 675 687
-
(2008)
Curr. Opin. Drug Discov. Devel.
, vol.11
, pp. 675-687
-
-
Demarest, S.J.1
Glaser, S.M.2
-
6
-
-
0027467623
-
X-ray structures of the antigen-binding domains from three variants of humanized anti-p185HER2 antibody 4D5 and comparison with molecular modeling
-
C. Eigenbrot, M. Randal, L. Presta, P. Carter, and A.A. Kossiakoff X-ray structures of the antigen-binding domains from three variants of humanized anti-p185HER2 antibody 4D5 and comparison with molecular modeling J. Mol. Biol. 229 1993 969 995
-
(1993)
J. Mol. Biol.
, vol.229
, pp. 969-995
-
-
Eigenbrot, C.1
Randal, M.2
Presta, L.3
Carter, P.4
Kossiakoff, A.A.5
-
7
-
-
0037452533
-
Structure-based improvement of the biophysical properties of immunoglobulin VH domains with a generalizable approach
-
S. Ewert, A. Honegger, and A. Plückthun Structure-based improvement of the biophysical properties of immunoglobulin VH domains with a generalizable approach Biochemistry 42 2003 1517 1528
-
(2003)
Biochemistry
, vol.42
, pp. 1517-1528
-
-
Ewert, S.1
Honegger, A.2
Plückthun, A.3
-
8
-
-
0034984382
-
Mapping the folding pathway of an immunoglobulin domain: Structural detail from Phi value analysis and movement of the transition state
-
S.B. Fowler, and J. Clarke Mapping the folding pathway of an immunoglobulin domain: structural detail from Phi value analysis and movement of the transition state Structure 9 2001 355 366
-
(2001)
Structure
, vol.9
, pp. 355-366
-
-
Fowler, S.B.1
Clarke, J.2
-
9
-
-
77956338533
-
High-resolution mapping of protein sequence-function relationships
-
D.M. Fowler, C.L. Araya, S.J. Fleishman, E.H. Kellogg, J.J. Stephany, D. Baker, and S. Fields High-resolution mapping of protein sequence-function relationships Nat. Methods 7 2010 741 746
-
(2010)
Nat. Methods
, vol.7
, pp. 741-746
-
-
Fowler, D.M.1
Araya, C.L.2
Fleishman, S.J.3
Kellogg, E.H.4
Stephany, J.J.5
Baker, D.6
Fields, S.7
-
10
-
-
18844414326
-
High accuracy prediction of beta-turns and their types using propensities and multiple alignments
-
P.F. Fuchs, and A.J. Alix High accuracy prediction of beta-turns and their types using propensities and multiple alignments Proteins 59 2005 828 839
-
(2005)
Proteins
, vol.59
, pp. 828-839
-
-
Fuchs, P.F.1
Alix, A.J.2
-
11
-
-
33646562554
-
Structure-function studies of two synthetic anti-vascular endothelial growth factor Fabs and comparison with the Avastin Fab
-
G. Fuh, P. Wu, W.-C. Liang, M. Ultsch, C.V. Lee, B. Moffat, and C. Wiesmann Structure-function studies of two synthetic anti-vascular endothelial growth factor Fabs and comparison with the Avastin Fab J. Biol. Chem. 281 2006 6625 6631
-
(2006)
J. Biol. Chem.
, vol.281
, pp. 6625-6631
-
-
Fuh, G.1
Wu, P.2
Liang, W.-C.3
Ultsch, M.4
Lee, C.V.5
Moffat, B.6
Wiesmann, C.7
-
12
-
-
5144220785
-
Comparison of the transition states for folding of two Ig-like proteins from different superfamilies
-
C.D. Geierhaas, E. Paci, M. Vendruscolo, and J. Clarke Comparison of the transition states for folding of two Ig-like proteins from different superfamilies J. Mol. Biol. 343 2004 1111 1123
-
(2004)
J. Mol. Biol.
, vol.343
, pp. 1111-1123
-
-
Geierhaas, C.D.1
Paci, E.2
Vendruscolo, M.3
Clarke, J.4
-
13
-
-
0034625113
-
Crystal structure of a Staphylococcus aureus protein A domain complexed with the Fab fragment of a human IgM antibody: Structural basis for recognition of B-cell receptors and superantigen activity
-
M. Graille, E.A. Stura, A.L. Corper, B.J. Sutton, M.J. Taussig, J.B. Charbonnier, and G.J. Silverman Crystal structure of a Staphylococcus aureus protein A domain complexed with the Fab fragment of a human IgM antibody: structural basis for recognition of B-cell receptors and superantigen activity Proc. Natl. Acad. Sci. USA 97 2000 5399 5404
-
(2000)
Proc. Natl. Acad. Sci. USA
, vol.97
, pp. 5399-5404
-
-
Graille, M.1
Stura, E.A.2
Corper, A.L.3
Sutton, B.J.4
Taussig, M.J.5
Charbonnier, J.B.6
Silverman, G.J.7
-
14
-
-
0034695407
-
Conservation of folding and stability within a protein family: The tyrosine corner as an evolutionary cul-de-sac
-
S.J. Hamill, E. Cota, C. Chothia, and J. Clarke Conservation of folding and stability within a protein family: the tyrosine corner as an evolutionary cul-de-sac J. Mol. Biol. 295 2000 641 649
-
(2000)
J. Mol. Biol.
, vol.295
, pp. 641-649
-
-
Hamill, S.J.1
Cota, E.2
Chothia, C.3
Clarke, J.4
-
15
-
-
0034677663
-
The folding of an immunoglobulin-like Greek key protein is defined by a common-core nucleus and regions constrained by topology
-
S.J. Hamill, A. Steward, and J. Clarke The folding of an immunoglobulin-like Greek key protein is defined by a common-core nucleus and regions constrained by topology J. Mol. Biol. 297 2000 165 178
-
(2000)
J. Mol. Biol.
, vol.297
, pp. 165-178
-
-
Hamill, S.J.1
Steward, A.2
Clarke, J.3
-
17
-
-
27144432842
-
Engineered antibody fragments and the rise of single domains
-
P. Holliger, and P.J. Hudson Engineered antibody fragments and the rise of single domains Nat. Biotechnol. 23 2005 1126 1136
-
(2005)
Nat. Biotechnol.
, vol.23
, pp. 1126-1136
-
-
Holliger, P.1
Hudson, P.J.2
-
18
-
-
38449112154
-
Engineering antibodies for stability and efficient folding
-
A. Honegger Engineering antibodies for stability and efficient folding Handb. Exp. Pharmacol. 181 2008 47 68
-
(2008)
Handb. Exp. Pharmacol.
, vol.181
, pp. 47-68
-
-
Honegger, A.1
-
19
-
-
33749257494
-
Assessing computational amino acid beta-turn propensities with a phage-displayed combinatorial library and directed evolution
-
H.J. Hsu, H.J. Chang, H.P. Peng, S.S. Huang, M.Y. Lin, and A.S. Yang Assessing computational amino acid beta-turn propensities with a phage-displayed combinatorial library and directed evolution Structure 14 2006 1499 1510
-
(2006)
Structure
, vol.14
, pp. 1499-1510
-
-
Hsu, H.J.1
Chang, H.J.2
Peng, H.P.3
Huang, S.S.4
Lin, M.Y.5
Yang, A.S.6
-
20
-
-
77950880605
-
Engineering anti-vascular endothelial growth factor single chain disulfide-stabilized antibody variable fragments (sc-dsFv) with phage-displayed sc-dsFv libraries
-
Y.J. Huang, I.C. Chen, C.M. Yu, Y.C. Lee, H.J. Hsu, A.T. Ching, H.J. Chang, and A.S. Yang Engineering anti-vascular endothelial growth factor single chain disulfide-stabilized antibody variable fragments (sc-dsFv) with phage-displayed sc-dsFv libraries J. Biol. Chem. 285 2010 7880 7891
-
(2010)
J. Biol. Chem.
, vol.285
, pp. 7880-7891
-
-
Huang, Y.J.1
Chen, I.C.2
Yu, C.M.3
Lee, Y.C.4
Hsu, H.J.5
Ching, A.T.6
Chang, H.J.7
Yang, A.S.8
-
21
-
-
60849083585
-
Understanding the mechanism of beta-sheet folding from a chemical and biological perspective
-
M. Jager, S. Deechongkit, E.K. Koepf, H. Nguyen, J. Gao, E.T. Powers, M. Gruebele, and J.W. Kelly Understanding the mechanism of beta-sheet folding from a chemical and biological perspective Biopolymers 90 2008 751 758
-
(2008)
Biopolymers
, vol.90
, pp. 751-758
-
-
Jager, M.1
Deechongkit, S.2
Koepf, E.K.3
Nguyen, H.4
Gao, J.5
Powers, E.T.6
Gruebele, M.7
Kelly, J.W.8
-
22
-
-
0035793080
-
Tailoring in vitro evolution for protein affinity or stability
-
L. Jermutus, A. Honegger, F. Schwesinger, J. Hanes, and A. Plückthun Tailoring in vitro evolution for protein affinity or stability Proc. Natl. Acad. Sci. USA 98 2001 75 80
-
(2001)
Proc. Natl. Acad. Sci. USA
, vol.98
, pp. 75-80
-
-
Jermutus, L.1
Honegger, A.2
Schwesinger, F.3
Hanes, J.4
Plückthun, A.5
-
23
-
-
4444302074
-
Aggregation-resistant domain antibodies selected on phage by heat denaturation
-
L. Jespers, O. Schon, K. Famm, and G. Winter Aggregation-resistant domain antibodies selected on phage by heat denaturation Nat. Biotechnol. 22 2004 1161 1165
-
(2004)
Nat. Biotechnol.
, vol.22
, pp. 1161-1165
-
-
Jespers, L.1
Schon, O.2
Famm, K.3
Winter, G.4
-
24
-
-
70449957149
-
Structural understanding of stabilization patterns in engineered bispecific Ig-like antibody molecules
-
J.L. Jordan, J.W. Arndt, K. Hanf, G. Li, J. Hall, S. Demarest, F. Huang, X. Wu, B. Miller, and S. Glaser et al. Structural understanding of stabilization patterns in engineered bispecific Ig-like antibody molecules Proteins 77 2009 832 841
-
(2009)
Proteins
, vol.77
, pp. 832-841
-
-
Jordan, J.L.1
Arndt, J.W.2
Hanf, K.3
Li, G.4
Hall, J.5
Demarest, S.6
Huang, F.7
Wu, X.8
Miller, B.9
Glaser, S.10
-
25
-
-
0033584889
-
Selection for improved protein stability by phage display
-
S. Jung, A. Honegger, and A. Plückthun Selection for improved protein stability by phage display J. Mol. Biol. 294 1999 163 180
-
(1999)
J. Mol. Biol.
, vol.294
, pp. 163-180
-
-
Jung, S.1
Honegger, A.2
Plückthun, A.3
-
26
-
-
60749090900
-
Stabilization and humanization of a single-chain Fv antibody fragment specific for human lymphocyte antigen CD19 by designed point mutations and CDR-grafting onto a human framework
-
M. Kügler, C. Stein, M. Schwenkert, D. Saul, L. Vockentanz, T. Huber, S.K. Wetzel, O. Scholz, A. Plückthun, A. Honegger, and G.H. Fey Stabilization and humanization of a single-chain Fv antibody fragment specific for human lymphocyte antigen CD19 by designed point mutations and CDR-grafting onto a human framework Protein Eng. Des. Sel. 22 2009 135 147
-
(2009)
Protein Eng. Des. Sel.
, vol.22
, pp. 135-147
-
-
Kügler, M.1
Stein, C.2
Schwenkert, M.3
Saul, D.4
Vockentanz, L.5
Huber, T.6
Wetzel, S.K.7
Scholz, O.8
Plückthun, A.9
Honegger, A.10
Fey, G.H.11
-
27
-
-
36549027487
-
Plasticity within the obligatory folding nucleus of an immunoglobulin-like domain
-
I. Lappalainen, M.G. Hurley, and J. Clarke Plasticity within the obligatory folding nucleus of an immunoglobulin-like domain J. Mol. Biol. 375 2008 547 559
-
(2008)
J. Mol. Biol.
, vol.375
, pp. 547-559
-
-
Lappalainen, I.1
Hurley, M.G.2
Clarke, J.3
-
28
-
-
0033604845
-
Effects of core mutations on the folding of a beta-sheet protein: Implications for backbone organization in the I-state
-
M. Lorch, J.M. Mason, A.R. Clarke, and M.J. Parker Effects of core mutations on the folding of a beta-sheet protein: implications for backbone organization in the I-state Biochemistry 38 1999 1377 1385
-
(1999)
Biochemistry
, vol.38
, pp. 1377-1385
-
-
Lorch, M.1
Mason, J.M.2
Clarke, A.R.3
Parker, M.J.4
-
29
-
-
47749136312
-
Roles of beta-turns in protein folding: From peptide models to protein engineering
-
A.M. Marcelino, and L.M. Gierasch Roles of beta-turns in protein folding: from peptide models to protein engineering Biopolymers 89 2008 380 391
-
(2008)
Biopolymers
, vol.89
, pp. 380-391
-
-
Marcelino, A.M.1
Gierasch, L.M.2
-
30
-
-
0033871567
-
Critical role of beta-hairpin formation in protein G folding
-
E.L. McCallister, E. Alm, and D. Baker Critical role of beta-hairpin formation in protein G folding Nat. Struct. Biol. 7 2000 669 673
-
(2000)
Nat. Struct. Biol.
, vol.7
, pp. 669-673
-
-
McCallister, E.L.1
Alm, E.2
Baker, D.3
-
31
-
-
77955976111
-
Stability engineering of scFvs for the development of bispecific and multivalent antibodies
-
B.R. Miller, S.J. Demarest, A. Lugovskoy, F. Huang, X. Wu, W.B. Snyder, L.J. Croner, N. Wang, A. Amatucci, J.S. Michaelson, and S.M. Glaser Stability engineering of scFvs for the development of bispecific and multivalent antibodies Protein Eng. Des. Sel. 23 2010 549 557
-
(2010)
Protein Eng. Des. Sel.
, vol.23
, pp. 549-557
-
-
Miller, B.R.1
Demarest, S.J.2
Lugovskoy, A.3
Huang, F.4
Wu, X.5
Snyder, W.B.6
Croner, L.J.7
Wang, N.8
Amatucci, A.9
Michaelson, J.S.10
Glaser, S.M.11
-
32
-
-
33748105087
-
Improving the stability of an antibody variable fragment by a combination of knowledge-based approaches: Validation and mechanisms
-
E. Monsellier, and H. Bedouelle Improving the stability of an antibody variable fragment by a combination of knowledge-based approaches: validation and mechanisms J. Mol. Biol. 362 2006 580 593
-
(2006)
J. Mol. Biol.
, vol.362
, pp. 580-593
-
-
Monsellier, E.1
Bedouelle, H.2
-
33
-
-
0034964196
-
Computer-based redesign of a protein folding pathway
-
S. Nauli, B. Kuhlman, and D. Baker Computer-based redesign of a protein folding pathway Nat. Struct. Biol. 8 2001 602 605
-
(2001)
Nat. Struct. Biol.
, vol.8
, pp. 602-605
-
-
Nauli, S.1
Kuhlman, B.2
Baker, D.3
-
34
-
-
64349107630
-
Development trends for therapeutic antibody fragments
-
A.L. Nelson, and J.M. Reichert Development trends for therapeutic antibody fragments Nat. Biotechnol. 27 2009 331 337
-
(2009)
Nat. Biotechnol.
, vol.27
, pp. 331-337
-
-
Nelson, A.L.1
Reichert, J.M.2
-
35
-
-
33748992038
-
Receptor editing in lymphocyte development and central tolerance
-
D. Nemazee Receptor editing in lymphocyte development and central tolerance Nat. Rev. Immunol. 6 2006 728 740
-
(2006)
Nat. Rev. Immunol.
, vol.6
, pp. 728-740
-
-
Nemazee, D.1
-
36
-
-
79251598995
-
A new clustering of antibody CDR loop conformations
-
B. North, A. Lehmann, and R.L. Dunbrack Jr. A new clustering of antibody CDR loop conformations J. Mol. Biol. 406 2011 228 256
-
(2011)
J. Mol. Biol.
, vol.406
, pp. 228-256
-
-
North, B.1
Lehmann, A.2
Dunbrack, Jr.R.L.3
-
37
-
-
84862546176
-
Critical features for biosynthesis, stability, and functionality of a G protein-coupled receptor uncovered by all-versus-all mutations
-
K.M. Schlinkmann, A. Honegger, E. Türeci, K.E. Robison, D. Lipovšek, and A. Plückthun Critical features for biosynthesis, stability, and functionality of a G protein-coupled receptor uncovered by all-versus-all mutations Proc. Natl. Acad. Sci. USA 109 2012 9810 9815
-
(2012)
Proc. Natl. Acad. Sci. USA
, vol.109
, pp. 9810-9815
-
-
Schlinkmann, K.M.1
Honegger, A.2
Türeci, E.3
Robison, K.E.4
Lipovšek, D.5
Plückthun, A.6
-
38
-
-
34748919075
-
The role of the turn in beta-hairpin formation during WW domain folding
-
T. Sharpe, A.L. Jonsson, T.J. Rutherford, V. Daggett, and A.R. Fersht The role of the turn in beta-hairpin formation during WW domain folding Protein Sci. 16 2007 2233 2239
-
(2007)
Protein Sci.
, vol.16
, pp. 2233-2239
-
-
Sharpe, T.1
Jonsson, A.L.2
Rutherford, T.J.3
Daggett, V.4
Fersht, A.R.5
-
39
-
-
66249116994
-
Conserved amino acid networks involved in antibody variable domain interactions
-
N. Wang, W.F. Smith, B.R. Miller, D. Aivazian, A.A. Lugovskoy, M.E. Reff, S.M. Glaser, L.J. Croner, and S.J. Demarest Conserved amino acid networks involved in antibody variable domain interactions Proteins 76 2009 99 114
-
(2009)
Proteins
, vol.76
, pp. 99-114
-
-
Wang, N.1
Smith, W.F.2
Miller, B.R.3
Aivazian, D.4
Lugovskoy, A.A.5
Reff, M.E.6
Glaser, S.M.7
Croner, L.J.8
Demarest, S.J.9
-
40
-
-
84863005606
-
Towards a universal disulphide stabilised single chain Fv format: Importance of interchain disulphide bond location and vL-vH orientation
-
E.E. Weatherill, K.L. Cain, S.P. Heywood, J.E. Compson, J.T. Heads, R. Adams, and D.P. Humphreys Towards a universal disulphide stabilised single chain Fv format: importance of interchain disulphide bond location and vL-vH orientation Protein Eng. Des. Sel. 25 2012 321 329
-
(2012)
Protein Eng. Des. Sel.
, vol.25
, pp. 321-329
-
-
Weatherill, E.E.1
Cain, K.L.2
Heywood, S.P.3
Compson, J.E.4
Heads, J.T.5
Adams, R.6
Humphreys, D.P.7
-
41
-
-
84862025262
-
Optimization of affinity, specificity and function of designed influenza inhibitors using deep sequencing
-
T.A. Whitehead, A. Chevalier, Y. Song, C. Dreyfus, S.J. Fleishman, C. De Mattos, C.A. Myers, H. Kamisetty, P. Blair, I.A. Wilson, and D. Baker Optimization of affinity, specificity and function of designed influenza inhibitors using deep sequencing Nat. Biotechnol. 30 2012 543 548
-
(2012)
Nat. Biotechnol.
, vol.30
, pp. 543-548
-
-
Whitehead, T.A.1
Chevalier, A.2
Song, Y.3
Dreyfus, C.4
Fleishman, S.J.5
De Mattos, C.6
Myers, C.A.7
Kamisetty, H.8
Blair, P.9
Wilson, I.A.10
Baker, D.11
-
42
-
-
0032558362
-
Mutual stabilization of VL and VH in single-chain antibody fragments, investigated with mutants engineered for stability
-
A. Wörn, and A. Plückthun Mutual stabilization of VL and VH in single-chain antibody fragments, investigated with mutants engineered for stability Biochemistry 37 1998 13120 13127
-
(1998)
Biochemistry
, vol.37
, pp. 13120-13127
-
-
Wörn, A.1
Plückthun, A.2
-
43
-
-
0040964401
-
Different equilibrium stability behavior of ScFv fragments: Identification, classification, and improvement by protein engineering
-
A. Wörn, and A. Plückthun Different equilibrium stability behavior of ScFv fragments: identification, classification, and improvement by protein engineering Biochemistry 38 1999 8739 8750
-
(1999)
Biochemistry
, vol.38
, pp. 8739-8750
-
-
Wörn, A.1
Plückthun, A.2
-
44
-
-
0035793208
-
Stability engineering of antibody single-chain Fv fragments
-
A. Wörn, and A. Plückthun Stability engineering of antibody single-chain Fv fragments J. Mol. Biol. 305 2001 989 1010
-
(2001)
J. Mol. Biol.
, vol.305
, pp. 989-1010
-
-
Wörn, A.1
Plückthun, A.2
-
45
-
-
0030596522
-
Free energy determinants of secondary structure formation: III. Beta-turns and their role in protein folding
-
A.S. Yang, B. Hitz, and B. Honig Free energy determinants of secondary structure formation: III. beta-turns and their role in protein folding J. Mol. Biol. 259 1996 873 882
-
(1996)
J. Mol. Biol.
, vol.259
, pp. 873-882
-
-
Yang, A.S.1
Hitz, B.2
Honig, B.3
-
46
-
-
84863338291
-
Rationalization and design of the complementarity determining region sequences in an antibody-antigen recognition interface
-
C.M. Yu, H.P. Peng, I.C. Chen, Y.C. Lee, J.B. Chen, K.C. Tsai, C.T. Chen, J.Y. Chang, E.W. Yang, and P.C. Hsu et al. Rationalization and design of the complementarity determining region sequences in an antibody-antigen recognition interface PLoS ONE 7 2012 e33340
-
(2012)
PLoS ONE
, vol.7
, pp. 33340
-
-
Yu, C.M.1
Peng, H.P.2
Chen, I.C.3
Lee, Y.C.4
Chen, J.B.5
Tsai, K.C.6
Chen, C.T.7
Chang, J.Y.8
Yang, E.W.9
Hsu, P.C.10
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