-
3
-
-
0014347799
-
Stereochemical criteria for polypeptides and proteins v Conformation of a system of three linked peptide units
-
Venkatachalam CM. Stereochemical criteria for polypeptides and proteins. V. Conformation of a system of three linked peptide units. Biopolymers 1968; 6: 1425-36
-
(1968)
Biopolymers
, Issue.6
, pp. 1425-1436
-
-
Venkatachalam, C.M.1
-
7
-
-
75549085702
-
Protein geometry database: A flexible engine to explore backbone conformations and their relationships to covalent geometry
-
Berkholz DS, Krenesky PB, Davidson JR, Karplus PA. Protein geometry database: a flexible engine to explore backbone conformations and their relationships to covalent geometry. Nucleic Acids Res 2010; 38: D320-5
-
(2010)
Nucleic Acids Res
, vol.38
, pp. D320-D325
-
-
Berkholz, D.S.1
Krenesky, P.B.2
Davidson, J.R.3
Karplus, P.A.4
-
8
-
-
0000243829
-
PROCHECK - A program to check the stereochemical quality of protein structure
-
Laskowski RA, MacArthur MW, Moss DS, Thornton JM. PROCHECK - a program to check the stereochemical quality of protein structure. J Appl Cryst 1993; 26: 283-91
-
(1993)
J Appl Cryst
, vol.26
, pp. 283-291
-
-
Laskowski, R.A.1
MacArthur, M.W.2
Moss, D.S.3
Thornton, J.M.4
-
9
-
-
0030589514
-
Phi/psi-chology: Ramachandran revisited
-
Kleywegt GJ, Jones TA. Phi/psi-chology: Ramachandran revisited. Structure 1996; 4: 1395-400
-
(1996)
Structure
, vol.4
, pp. 1395-1400
-
-
Kleywegt, G.J.1
Jones, T.A.2
-
10
-
-
3242886389
-
MOLPROBITY: Structure validation and all-Atom contact analysis for nucleic acids and their complexes
-
Davis IW, Murray LW, Richardson JS, Richardson DC. MOLPROBITY: structure validation and all-Atom contact analysis for nucleic acids and their complexes. Nucleic Acids Res 2004; 32: W615-9
-
(2004)
Nucleic Acids Res
, vol.32
, pp. W615-W619
-
-
Davis, I.W.1
Murray, L.W.2
Richardson, J.S.3
Richardson, D.C.4
-
11
-
-
50449111518
-
The intrinsic conformational propensities of the 20 naturally occurring amino acids and reflection of these propensities in proteins
-
Beck DA, Alonso DO, Inoyama D, Daggett V. The intrinsic conformational propensities of the 20 naturally occurring amino acids and reflection of these propensities in proteins. Proc Natl Acad Sci USA 2008; 105: 12259-64
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 12259-12264
-
-
Beck, D.A.1
Alonso, D.O.2
Inoyama, D.3
Daggett, V.4
-
12
-
-
0025113022
-
Beta-turns and their distortions: A proposed new nomenclature
-
Wilmot CM, Thornton JM. Beta-turns and their distortions: a proposed new nomenclature. Protein Eng 1990; 3: 479-93
-
(1990)
Protein Eng
, vol.3
, pp. 479-493
-
-
Wilmot, C.M.1
Thornton, J.M.2
-
13
-
-
0027428284
-
Standard structures in proteins
-
Efimov AV. Standard structures in proteins. Prog Biophys Mol Biol 1993; 60: 201-39
-
(1993)
Prog Biophys Mol Biol
, vol.60
, pp. 201-239
-
-
Efimov, A.V.1
-
14
-
-
0031557395
-
An automated classification of the structure of protein loops
-
Oliva B, Bates PA, Querol E, Aviles FX, Sternberg MJ. An automated classification of the structure of protein loops. J Mol Biol 1997; 266: 814-30
-
(1997)
J Mol Biol
, vol.266
, pp. 814-830
-
-
Oliva, B.1
Bates, P.A.2
Querol, E.3
Aviles, F.X.4
Sternberg, M.J.5
-
15
-
-
0026009212
-
Prediction of protein backbone conformation based on seven structure assignments. Influence of local interactions
-
Rooman MJ, Kocher JP, Wodak SJ. Prediction of protein backbone conformation based on seven structure assignments. Influence of local interactions. J Mol Biol 1991; 221: 961-79
-
(1991)
J Mol Biol
, vol.221
, pp. 961-979
-
-
Rooman, M.J.1
Kocher, J.P.2
Wodak, S.J.3
-
16
-
-
46449114017
-
Structures, basins, and energies: A deconstruction of the Protein Coil Library
-
Perskie LL, Street TO, Rose GD. Structures, basins, and energies: a deconstruction of the Protein Coil Library. Protein Sci 2008; 17: 1151-61
-
(2008)
Protein Sci
, vol.17
, pp. 1151-1161
-
-
Perskie, L.L.1
Street, T.O.2
Rose, G.D.3
-
17
-
-
67650526041
-
Circular dichroism spectrum of peptides in the poly(Pro)II conformation
-
Woody RW. Circular dichroism spectrum of peptides in the poly(Pro)II conformation. J Am Chem Soc 2009; 131: 8234-45
-
(2009)
J Am Chem Soc
, vol.131
, pp. 8234-8245
-
-
Woody, R.W.1
-
19
-
-
0027474991
-
Left-handed polyproline II helices commonly occur in globular proteins
-
Adzhubei AA, Sternberg MJ. Left-handed polyproline II helices commonly occur in globular proteins. J Mol Biol 1993; 229: 472-93
-
(1993)
J Mol Biol
, vol.229
, pp. 472-493
-
-
Adzhubei, A.A.1
Sternberg, M.J.2
-
20
-
-
0001312299
-
The gamma turn, a possible folded conformation of the peptide chain Comparison with the betaturn
-
Nëethy G, Printz MP. The gamma turn, a possible folded conformation of the peptide chain. Comparison with the betaturn. Macromolecules 1972; 5: 755-8
-
(1972)
Macromolecules
, vol.5
, pp. 755-758
-
-
Neethy, G.1
Printz, M.P.2
-
22
-
-
0030010605
-
Experimentally observed conformation-dependent geometry and hidden strain in proteins
-
Karplus PA. Experimentally observed conformation-dependent geometry and hidden strain in proteins. Protein Sci 1996; 5: 1406-20
-
(1996)
Protein Sci
, vol.5
, pp. 1406-1420
-
-
Karplus, P.A.1
-
24
-
-
0037441653
-
Structure validation by C alpha geometry: Phi, psi and C beta deviation
-
Lovell SC, Davis IW, Arendall WB 3rd, de Bakker PI, Word JM, Prisant MG, Richardson JS, Richardson DC. Structure validation by C alpha geometry: phi, psi and C beta deviation. Proteins 2003; 50: 437-50
-
(2003)
Proteins
, vol.50
, pp. 437-450
-
-
Lovell, S.C.1
Davis, I.W.2
Arendall, W.B.3
De Bakker, P.I.4
Word, J.M.5
Prisant, M.G.6
Richardson, J.S.7
Richardson, D.C.8
-
26
-
-
22244450719
-
Protein families and their evolution - A structural perspective
-
Orengo CA, Thornton JM. Protein families and their evolution - a structural perspective. Annu Rev Biochem 2005; 74: 867-900
-
(2005)
Annu Rev Biochem
, vol.74
, pp. 867-900
-
-
Orengo, C.A.1
Thornton, J.M.2
-
27
-
-
0014842661
-
IUPAC-iub commission on biochemical nomenclature abbreviations and symbols for the description of the conformation of polypeptide chains
-
International Union of Pure and Applied Chemistry (IUPAC)
-
International Union of Pure and Applied Chemistry (IUPAC). IUPAC-IUB Commission on biochemical nomenclature. Abbreviations and symbols for the description of the conformation of polypeptide chains. Biochemistry 1970; 9: 3471-9
-
(1970)
Biochemistry
, vol.9
, pp. 3471-3479
-
-
-
28
-
-
13244258557
-
-
Fitzkee NC, Fleming PJ, Gong H, Panasik N Jr, Street TO, Rose GD. Are proteins made from a limited parts list? Trends Biochem Sci 2005; 30: 73-80
-
(2005)
Are Proteins Made from A Limited Parts List? Trends Biochem Sci
, vol.30
, pp. 73-80
-
-
Fitzkee, N.C.1
Fleming, P.J.2
Gong, H.3
Panasik, N.4
Street, T.O.5
Rose, G.D.6
-
30
-
-
76549252207
-
The structure of proteins; Two hydrogen-bonded helical configurations of the polypeptide chain
-
Pauling L, Corey RB, Branson HR. The structure of proteins; two hydrogen-bonded helical configurations of the polypeptide chain. Proc Natl Acad Sci USA 1951; 37: 205-11
-
(1951)
Proc Natl Acad Sci USA
, vol.37
, pp. 205-211
-
-
Pauling, L.1
Corey, R.B.2
Branson, H.R.3
-
31
-
-
0027616709
-
How my interest in proteins developed
-
Pauling L. How my interest in proteins developed. Protein Sci 1993; 2: 1060-3
-
(1993)
Protein Sci
, vol.2
, pp. 1060-1063
-
-
Pauling, L.1
-
32
-
-
0000591348
-
New X-ray evidence on the configuration of polypeptide chains
-
Perutz MF. New X-ray evidence on the configuration of polypeptide chains. Nature 1951; 167: 1053-4
-
(1951)
Nature
, vol.167
, pp. 1053-1054
-
-
Perutz, M.F.1
-
33
-
-
0013820507
-
X-ray diffraction studies on polypeptide conformations
-
Davies DR. X-ray diffraction studies on polypeptide conformations. Prog Biophys Mol Biol 1965; 15: 189-222
-
(1965)
Prog Biophys Mol Biol
, vol.15
, pp. 189-222
-
-
Davies, D.R.1
-
34
-
-
0037103092
-
Variants of 310-helices in proteins
-
Pal L, Basu G, Chakrabarti P. Variants of 310-helices in proteins. Proteins 2002; 48: 571-9
-
(2002)
Proteins
, vol.48
, pp. 571-579
-
-
Pal, L.1
Basu, G.2
Chakrabarti, P.3
-
35
-
-
33746218835
-
3 10-helices in proteins are parahelices
-
Enkhbayar P, Hikichi K, Osaki M, Kretsinger RH, Matsushima N. 3(10)-helices in proteins are parahelices. Proteins 2006; 64: 691-9
-
(2006)
Proteins
, vol.64
, pp. 691-699
-
-
Enkhbayar, P.1
Hikichi, K.2
Osaki, M.3
Kretsinger, R.H.4
Matsushima, N.5
-
36
-
-
0032692474
-
Novel protein structural motifs containing twoturn and longer 310-helices
-
Pal L, Basu G. Novel protein structural motifs containing twoturn and longer 310-helices. Protein Eng 1999; 12: 811-4
-
(1999)
Protein Eng
, vol.12
, pp. 811-814
-
-
Pal, L.1
Basu, G.2
-
37
-
-
76549238253
-
The pleated sheet, a new layer configuration of polypeptide chains
-
Pauling L, Corey RB. The pleated sheet, a new layer configuration of polypeptide chains. Proc Natl Acad Sci USA 1951; 37: 251-6
-
(1951)
Proc Natl Acad Sci USA
, vol.37
, pp. 251-256
-
-
Pauling, L.1
Corey, R.B.2
-
38
-
-
0019443447
-
The anatomy and taxonomy of protein structure
-
Richardson JS. The anatomy and taxonomy of protein structure. Adv Protein Chem 1981; 34: 167-339
-
(1981)
Adv Protein Chem
, vol.34
, pp. 167-339
-
-
Richardson, J.S.1
-
39
-
-
0017615801
-
Logical analysis of the mechanism of protein folding. IV. Super-secondary structures
-
Nagano K. Logical analysis of the mechanism of protein folding. IV. Super-secondary structures. J Mol Biol 1977; 109: 235-50
-
(1977)
J Mol Biol
, vol.109
, pp. 235-250
-
-
Nagano, K.1
-
40
-
-
0001567029
-
Structure of poly-L-proline II.
-
Sasisekharan V. Structure of poly-L-proline II. Acta Crystallogr 1959; 12: 897-903
-
(1959)
Acta Crystallogr
, vol.12
, pp. 897-903
-
-
Sasisekharan, V.1
-
41
-
-
0014416148
-
The structure of poly-L-proline II
-
Arnott S, Dover SD. The structure of poly-L-proline II. Acta Crystallogr B 1968; 24: 599-601
-
(1968)
Acta Crystallogr B
, vol.24
, pp. 599-601
-
-
Arnott, S.1
Dover, S.D.2
-
42
-
-
0141821477
-
Conformational analysis of macromolecules. III. Helical structures of polyglycine and poly-Lalanine
-
Scott RA, Scheraga HA. Conformational analysis of macromolecules. III. Helical structures of polyglycine and poly-Lalanine. J Chem Phys 1966; 45: 2091-101
-
(1966)
J Chem Phys
, vol.45
, pp. 2091-2101
-
-
Scott, R.A.1
Scheraga, H.A.2
-
43
-
-
0036400325
-
Is polyproline II a major backbone conformation in unfolded proteinš
-
Shi Z, Woody RW, Kallenbach NR. Is polyproline II a major backbone conformation in unfolded proteinš. Adv Protein Chem 2002; 62: 163-240
-
(2002)
Adv Protein Chem
, vol.62
, pp. 163-240
-
-
Shi, Z.1
Woody, R.W.2
Kallenbach, N.R.3
-
44
-
-
0000556407
-
Hydrogen bonded helical configurations of the polypeptide chain
-
Donohue J. Hydrogen bonded helical configurations of the polypeptide chain. Proc Natl Acad Sci USA 1953; 39: 470-8
-
(1953)
Proc Natl Acad Sci USA
, vol.39
, pp. 470-478
-
-
Donohue, J.1
-
45
-
-
0001142723
-
The pi-helix - A hydrogen bonded configuration of the polypeptide chain
-
Low B, Baybutt R. The pi-helix - a hydrogen bonded configuration of the polypeptide chain. J Am Chem Soc 1952; 74: 5806-7
-
(1952)
J Am Chem Soc
, vol.74
, pp. 5806-5807
-
-
Low, B.1
Baybutt, R.2
-
46
-
-
0033978466
-
The pi-helix translates structure into function
-
Weaver TM. The pi-helix translates structure into function. Protein Sci 2000; 9: 201-6
-
(2000)
Protein Sci
, vol.9
, pp. 201-206
-
-
Weaver, T.M.1
-
47
-
-
53249105518
-
Pi-Turns: Types, systematics and the context of their occurrence in protein structures
-
Dasgupta B, Chakrabarti P. pi-Turns: types, systematics and the context of their occurrence in protein structures. BMC Struct Biol 2008; 8: 39
-
(2008)
BMC Struct Biol
, vol.8
, pp. 39
-
-
Dasgupta, B.1
Chakrabarti, P.2
-
48
-
-
0036276409
-
Occurrence, conformational features and amino acid propensities for the p-helix
-
Fodje MN, Al-Karadaghi S. Occurrence, conformational features and amino acid propensities for the p-helix. Protein Eng 2002; 15: 353-8
-
(2002)
Protein Eng
, vol.15
, pp. 353-358
-
-
Fodje, M.N.1
Al-Karadaghi, S.2
-
49
-
-
0035915130
-
Paulings left-handed a-helix
-
Dunitz J. Paulings left-handed a-helix. Angew Chem Int Ed 2001; 40: 4167-73
-
(2001)
Angew Chem Int Ed
, vol.40
, pp. 4167-4173
-
-
Dunitz, J.1
-
50
-
-
0028566270
-
A revised set of potentials for b-turn formation in proteins
-
Hutchinson EG, Thornton JM. A revised set of potentials for b-turn formation in proteins. Protein Sci 1994; 3: 2207-16
-
(1994)
Protein Sci
, vol.3
, pp. 2207-2216
-
-
Hutchinson, E.G.1
Thornton, J.M.2
-
51
-
-
0023459639
-
Approaching a complete classification of protein secondary structure
-
Adzhubei AA, Eisenmenger F, Tumanyan VG, Zinke M, Brodzinski S, Esipova NG. Approaching a complete classification of protein secondary structure. J Biomol Struct Dyn 1987; 5: 689-704
-
(1987)
J Biomol Struct Dyn
, vol.5
, pp. 689-704
-
-
Adzhubei, A.A.1
Eisenmenger, F.2
Tumanyan, V.G.3
Zinke, M.4
Brodzinski, S.5
Esipova, N.G.6
-
52
-
-
0025326949
-
Automatic definition of recurrent local structure motifs in proteins
-
Rooman MJ, Rodriguez J, Wodak SJ. Automatic definition of recurrent local structure motifs in proteins. J Mol Biol 1990; 213: 327-36
-
(1990)
J Mol Biol
, vol.213
, pp. 327-336
-
-
Rooman, M.J.1
Rodriguez, J.2
Wodak, S.J.3
-
53
-
-
0027901962
-
Automatic derivation of substructures yields novel structural building blocks in globular proteins
-
Zhang X, Fetrow JS, Rennie WA, Waltz DL, Berg, G. Automatic derivation of substructures yields novel structural building blocks in globular proteins. Proc Int Conf Intell Syst Mol Biol 1993; 1: 438-46
-
(1993)
Proc Int Conf Intell Syst Mol Biol
, vol.1
, pp. 438-446
-
-
Zhang, X.1
Fetrow, J.S.2
Rennie, W.A.3
Waltz, D.L.4
Berg, G.5
-
54
-
-
0029860175
-
Local structural motifs of protein backbones are classified by self-organizing neural networks
-
Schuchhardt J, Schneider G, Reichelt J, Schomburg D, Wrede P. Local structural motifs of protein backbones are classified by self-organizing neural networks. Protein Eng 1996; 9: 833-42
-
(1996)
Protein Eng
, vol.9
, pp. 833-842
-
-
Schuchhardt, J.1
Schneider, G.2
Reichelt, J.3
Schomburg, D.4
Wrede, P.5
-
55
-
-
0029863769
-
Automatic classification and analysis of a a-turn motifs in proteins
-
Wintjens RT, Rooman MJ, Wodak SJ. Automatic classification and analysis of a a-turn motifs in proteins. J Mol Biol 1996; 255: 235-53
-
(1996)
J Mol Biol
, vol.255
, pp. 235-253
-
-
Wintjens, R.T.1
Rooman, M.J.2
Wodak, S.J.3
-
56
-
-
0031052447
-
Patterns, structures, and amino acid frequencies in structural building blocks, a protein secondary structure classification scheme
-
Fetrow JS, Palumbo MJ, Berg G. Patterns, structures, and amino acid frequencies in structural building blocks, a protein secondary structure classification scheme. Proteins 1997; 27: 249-71
-
(1997)
Proteins
, vol.27
, pp. 249-271
-
-
Fetrow, J.S.1
Palumbo, M.J.2
Berg, G.3
-
57
-
-
0031927279
-
Typical interaction patterns in ab and ba turn motifs
-
Wintjens R, Wodak SJ, Rooman M. Typical interaction patterns in ab and ba turn motifs. Protein Eng 1998; 11: 505-22
-
(1998)
Protein Eng
, vol.11
, pp. 505-522
-
-
Wintjens, R.1
Wodak, S.J.2
Rooman, M.3
-
59
-
-
17744361862
-
Visualization of conformational distribution of short to medium size segments in globular proteins and identification of local structural motifs
-
Ikeda K, Tomii K, Yokomizo T, Mitomo D, Maruyama K, Suzuki S, Higo J. Visualization of conformational distribution of short to medium size segments in globular proteins and identification of local structural motifs. Protein Sci 2005; 14: 1253-65
-
(2005)
Protein Sci
, vol.14
, pp. 1253-1265
-
-
Ikeda, K.1
Tomii, K.2
Yokomizo, T.3
Mitomo, D.4
Maruyama, K.5
Suzuki, S.6
Higo, J.7
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