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Designer Proteins

PDB ID Authors First Page PubMed ID Journal Name Citation Title Volume No Publication Year
1ABZ Y.Fezoui, P.J.Connolly, J.J.Osterhout 1869 9300486 Protein Sci Solution structure of alpha t alpha, a helical hairpin peptide of de novo design. 6 1997
1BB1 S.Nautiyal, T.C.Alber 84 10210186 Protein Sci. Crystal Structure of a Designed, Thermostable, Heterotrimeric Coiled Coil 8 1999
1BYZ G.G.Prive, D.H.Anderson, L.Wesson, D.Cascio, D.Eisenberg 1400 n/a Protein Sci Packed protein bilayers in the 0.90 angstrom resolution structure of a designed alpha helical bundle. 8 1999
1COI N.L.Ogihara, M.S.Weiss, W.F.Degrado, D.Eisenberg 80 9007979 Protein Sci The crystal structure of the designed trimeric coiled coil coil-VaLd: implications for engineering crystals and supramolecular assemblies. 6 1997
1E65 H.Nar , A.Messerschmidt, R.Huber, M.Van De Kamp, G.W.Canters 119 1633865 FEBS Lett. Crystal Structure of Pseudomonas Aeruginosa Apo-Azurin at 1.84 A Resolution 306 1992
1FSD B.I.Dahiyat, S.L.Mayo 82 9311930 Science De novo protein design: fully automated sequence selection. 278 1997
1FSV B.I.Dahiyat, S.L.Mayo 82 9311930 Science De novo protein design: fully automated sequence selection. 278 1997
1G6U N.L.Ogihara, G.Ghirlanda, J.W.Bryson, M.Gingery, W.F.Degrado, D.Eisenberg 1404 11171963 Proc.Nat.Acad.Sci.USA Design of Three-Dimensional Domain-Swapped Dimers and Fibrous Oligomers 98 2001
1HQJ P.Burkhard, M.Meier, A.Lustig 2294 11206050 Protein Sci. Design of a Minimal Protein Oligomerization Domain by a Structural Approach 9 2001
1IC9 J.J.Ottesen, B.Imperiali 535 11373623 Nat.Struct.Biol. Design of a Discretely Folded Mini-Protein Motif with Predominantly B-Structure 8 2001
1ICL J.J.Ottesen, B.Imperiali 535 11373623 Nat.Struct.Biol. Design of a Discretely Folded Mini-Protein Motif with Predominantly B-Structure 8 2001
1ICO J.J.Ottesen, B.Imperiali 535 11373623 Nat.Struct.Biol. Design of a Discretely Folded Mini-Protein Motif with Predominantly B-Structure 8 2001
1J4M M.T.Pastor, M.Lopez De La Paz, E.Lacroix, L.Serrano, E.Perez-Paya 614 11782528 Proc.Nat.Acad.Sci.USA Combinatorial Approaches: A New Tool to Search for Highly Structured Beta-Hairpin Peptides 99 2002
1JM0 L.Di Costanzo, H.Wade, S.Geremia, L.Randaccio, W.F.Degrado, V.Pavone, A.Lombardi 12749 11749531 J.Am.Chem.Soc. Toward the De Novo Design of a Catalytically Active Helix Bundle: A Substrate-Accessible Carboxylate-Bridged Dinuclear Metal Center 123 2001
1JMB L.Di Costanzo, H.Wade, S.Geremia, L.Randaccio, W.F.Degrado, V.Pavone, A.Lombardi 12749 11749531 J.Am.Chem.Soc. Toward the De Novo Design of a Catalytically Active Helix Bundle: A Substrate-Accessible Carboxylate-Bridged Dinuclear Metal Center 123 2001
1JY4 J.Venkatraman, G.A.Nagana Gowda, P.Balaram 4987 11982362 J.Am.Chem.Soc. Design and Construction of an Open Multistranded Beta-Sheet Polypeptide Stabilized by a Disulfide Bridge 124 2002
1JY6 J.Venkatraman, G.A.Nagana Gowda, P.Balaram 4987 11982362 J.Am.Chem.Soc. Design and Construction of an Open Multistranded Beta-Sheet Polypeptide Stabilized by a Disulfide Bridge 124 2002
1JY9 H.E.Stanger, F.A.Syud, J.F.Espinosa, I.Giriat, T.Muir, S.H.Gellman 12015 11593011 Proc.Nat.Acad.Sci.USA Length-Dependent Stability and Strand Length Limits in Antiparallel Beta-Sheet Secondary Structure 98 2001
1K09 N.Carulla, C.Woodward, G.Barany 1539 12021452 Protein Sci. Betacore, a Designed Water Soluble Four-Stranded Antiparallel B-Sheet Protein 11 2002
1K43 M.T.Pastor, M.Lopez De La Paz, E.Lacroix, L.Serrano, E.Perez-Paya 614 11782528 Proc.Nat.Acad.Sci.USA Combinatorial Approaches: A New Tool to Search for Highly Structured Beta-Hairpin Peptides 99 2002
1KYC P.Burkhard, S.Ivaninskii, A.Lustig 901 12054832 J.Mol.Biol. Improving Coiled-Coil Stability by Optimizing Ionic Interactions 318 2002
1L2Y J.W.Neidigh, R.M.Fesinmeyer, N.H.Andersen 425 11979279 Nat.Struct.Biol. Designing a 20-Residue Protein 9 2002
1L4X M.Meier, A.Lustig, U.Aebi, P.Burkhard 65 12064934 J.Struct.Biol. Removing an Interhelical Salt Bridge Abolishes Coiled-Coil Formation in a De Novo Designed Peptide 137 2002
1LE0 A.G.Cochran, N.J.Skelton, M.A.Starovasnik 5578 11331745 Proc.Nat.Acad.Sci.USA Tryptophan Zippers: Stable, Monomeric Beta-Hairpins 98 2001
1LE1 A.G.Cochran, N.J.Skelton, M.A.Starovasnik 5578 11331745 Proc.Nat.Acad.Sci.USA Tryptophan Zippers: Stable, Monomeric Beta-Hairpins 98 2001
1LQ7 Q.-H.Dai, C.Tommos, E.J.Fuentes, M.Blomberg, P.L.Dutton, A.J.Wand 10952 12224922 J.Am.Chem.Soc. Structure of a De Novo Designed Protein Model of Radical Enzymes 124 2002
1LT1 W.F.Degrado, L.Di Costanzo, S.Geremia, A.Lombardi, V.Pavone, L.Randaccio 417 12569505 Angew.Chem.Int.Ed.Eng. Sliding Helix and Change of Coordination Geometry in a Model Di-Mnii Protein 42 2003
1M3W S.S.Huang, B.R.Gibney, S.E.Stayrook, P.L.Dutton, M.Lewis 1219 12589764 J.Mol.Biol. X-Ray Structure of a Maquette Scaffold 326 2003
1MFT S.J.Lahr, D.E.Engel, S.E.Stayrook, O.Maglio, B.North, S.Geremia, A.Lombardi, W.F.Degrado 1441 15713492 J.Mol.Biol. Analysis and Design of Turns in Alpha-Helical Hairpins 346 2005
1N09 S.J.Russell, T.Blandl, N.J.Skelton, A.G.Cochran 388 12517150 J.Am.Chem.Soc. Stability of Cyclic Beta-Hairins: Asymmetric Contributions from Side Chains of a Hydrogen-Bonded Cross-Strand Residue Pair 125 2003
1N0A T.Blandl, A.G.Cochran, N.J.Skelton 237 12538887 Protein Sci. Turn Stability in Beta-Hairpin Peptides: Investigation of Peptides Containing 3:5 Type I G1 Bulge Turns 12 2003
1N0C S.J.Russel, T.Blandl, N.J.Skelton, A.G.Cochran 388 12517150 J.Am.Chem.Soc. Stability of Cyclic Beta-Hairpins: Asymmetric Contributions from Side Chains of a Hydrogen-Bonded Cross-Strand Residue Pair 125 2003
1N0D S.J.Russell, T.Blandl, N.J.Skelton, A.G.Cochran 388 12517150 J.Am.Chem.Soc. Stability of Cyclic Beta-Hairpins: Asymmetric Contibutions from Side Chains of Hydrogen Bonded Cross-Strand Residue Pair 125 2003
1NA0 E.Main, Y.Xiong, M.Cocco, L.D'Andrea, L.Regan 497 12737816 Structure Design of Stable Alpha-Helical Arrays from an Idealized Tpr Motif 11 2003
1NA3 E.Main, Y.Xiong, M.Cocco, L.D'Andrea, L.Regan 497 12737816 Structure Design of Stable Alpha-Helical Arrays from an Idealized Tpr Motif 11 2003
1OVR L.Di Costanzo, S.Geremia, L.Randaccio n/a n/a To be Published Crystallographic Study of Artificial Metalloproteins with 4-Helix Bundle Motif n/a n/a
1OVU L.Di Costanzo, F.Forneris, S.Geremia, L.Randaccio 1435 12876346 Acta Crystallogr., Sect.D Phasing Protein Structures Using the Group-Subgroup Relation 59 2003
1OVV L.Di Costanzo, F.Forneris, S.Geremia, L.Randaccio 1435 12876346 Acta Crystallogr., Sect.D Phasing Protein Structures Using the Group-Subgroup Relation 59 2003
1P68 Y.Wei, S.Kim, D.Fela, J.Baum, M.H.Hecht 13270 14593201 Proc.Nat.Acad.Sci.USA Solution Structure of a De Novo Protein from a Designed Combinatorial Library 100 n/a
1PBZ M.M.Rosenblatt, J.Wang, K.S.Suslick 13140 14595023 Proc.Nat.Acad.Sci.USA De Novo Designed Cyclic-Peptide Heme Complexes 100 2003
1PSV B.I.Dahiyat, C.A.Sarisky, S.L.Mayo 789 9367772 J Mol Biol De novo protein design: towards fully automated sequence selection. 273 1997
1Q4F Rudresh, S.Ramakumar, U.A.Ramagopal, Y.Inai, S.Goel, D.Sahal, V.S.Chauhan 389 15016355 Structure De Novo Design and Characterization of a Helical Hairpin Eicosapeptide; Emergence of an Anion Receptor in the Linker Region. 12 2004
1QP6 R.B.Hill, W.F.Degrado 1138 n/a J.Am.Chem.Soc. Solution Structure of Alpha2D, a Nativelike De Novo Designed Protein 120 1998
1QYS B.Kuhlman, G.Dantas, G.C.Ireton, G.Varani, B.L.Stoddard, D.Baker 1364 14631033 Science Design of a Novel Globular Protein Fold with Atomic-Level Accuracy 302 2003
1RH4 P.B.Harbury, J.J.Plecs, B.Tidor, T.Alber, P.S.Kim 1462 9822371 Science High-resolution protein design with backbone freedom. 282 1998
1RIJ Y.Liu, Z.Liu, E.Androphy, J.Chen, J.D.Baleja 7421 15182185 Biochemistry Design and Characterization of Helical Peptides that Inhibit the E6 Protein of Papillomavirus. 43 2004
1S9Z R.A.Kammerer, D.Kostrewa, J.Zurdo, A.Detken, J.D.Green, B.H.Meier, F.K.Winkler, C.M.Dobson, M.O.Steinmetz 4435 15070736 Proc.Nat.Acad.Sci.USA Exploring Amyloid Formation by a De Novo Design 101 2004
1SN9 M.H.Ali, E.Peisach, K.N.Allen, B.Imperiali 12183 15302930 Proc.Natl.Acad.Sci.USA X-Ray Structure Analysis of a Designed Oligomeric Miniprotein Reveals a Discrete Quaternary Architecture 101 2004
1SNA M.H.Ali, E.Peisach, K.N.Allen, B.Imperiali 12183 n/a Proc.Natl.Acad.Sci.USA X-Ray Structure Analysis of a Designed Oligomeric Miniprotein Reveals a Discrete Quaternary Architecture 101 2004
1SNE M.H.Ali, E.Peisach, K.N.Allen, B.Imperiali 12183 n/a Proc.Natl.Acad.Sci.USA X-Ray Structure Analysis of a Designed Oligomeric Miniprotein Reveals a Discrete Quaternary Architecture 101 2004
1T8J M.D.Struthers, J.J.Ottesen, B.Imperiali 95 9565754 Fold.Des. Design and NMR Analyses of Compact, Independently Folded Bba Motifs 3 1998
1TGG J.J.Plecs, P.B.Harbury, P.S.Kim, T.Alber 289 15313624 J.Mol.Biol. Structural Test of the Parameterized-Backbone Method for Protein Design 342 2004
1TJB M.Nitz, M.Sherawat, K.J.Franz, E.Peisach, K.N.Allen, B.Imperiali 3682 15248272 Angew.Chem.Int.Ed.Engl. Structural Origin of the High Affinity of a Chemically Evolved Lanthanide-Binding Peptide 43 2004
1U40 S.Steinbacher, J.Kaiser, J.Wungsintaweekul, S.Hecht, W.Eisenreich, S.Gerhardt, A.Bacher, F.Rohdich 79 11829504 J.Mol.Biol. Structure of 2C-Methyl-D-Erythritol-2,4-Cyclodiphosphate Synthase Involved in Mevalonate Independent Biosynthesis of Isoprenoids 316 2002
1U7J S.J.Lahr, D.E.Engel, S.E.Stayrook, O.Maglio, B.North, S.Geremia, A.Lombardi, W.F.Degrado 1441 15713492 J.Mol.Biol. Analysis and Design of Turns in Alpha-Helical Hairpins 346 2005
1U7M S.J.Lahr, D.E.Engel, S.E.Stayrook, O.Maglio, B.North, S.Geremia, A.Lombardi, W.F.Degrado 1441 15713492 J.Mol.Biol. Analysis and Design of Turns in Alpha-Helical Hairpins 346 2005
1VL3 A.Lombardi, F.Nastri, D.Marasco, O.Maglio, G.De Sanctis, F.Sinibaldi, R.Santucci, M.Coletta, V.Pavone 5643 14639648 Chemistry Design of a New Mimochrome with Unique Topology. 9 2003
1XOF M.H.Ali, C.M.Taylor, G.Grigoryan, K.N.Allen, B.Imperiali, A.E.Keating 225 15698566 Structure Design of a Heterospecific, Tetrameric, 21-Residue Miniprotein with Mixed Alpha/Beta Structure. 13 2005
1Y47 S.J.Lahr, D.E.Engel, S.E.Stayrook, O.Maglio, B.North, S.Geremia, A.Lombardi, W.F.Degrado 1441 15713492 J.Mol.Biol. Analysis and Design of Turns in Alpha-Helical Hairpins 346 2005
1ZSZ D.N.Bolon, R.A.Grant, T.A.Baker, R.T.Sauer 12724 n/a Proc.Natl.Acad.Sci.USA Specificity Versus Stability in Computational Protein Design. 102 2005
2A3D S.T.R.Walsh, H.Cheng, J.W.Bryson, H.Roder, W.F.Degrado 5486 10318910 Proc.Nat.Acad.Sci.USA Solution Structure and Dynamics of a De Novo Designed Three Helix Bundle Protein 96 1999
3AL1 W.R.Patterson, D.H.Anderson, W.F.Degrado, D.Cascio, D.Eisenberg 1410 10422829 Protein Sci. Centrosymmetric Bilayers in the 0.75A Resolution Structure of a Designed Alpha-Helical Peptide, D, L-Alpha-1 8 1999
4HB1 C.E.Schafmeister, S.L.LaPorte, L.J.Miercke, R.M.Stroud 1039 9406555 Nat Struct Biol A designed four helix bundle protein with native-like structure. 4 1997

Last changed by: A.Honegger, 8/4/06