-
1
-
-
75149129569
-
A protocol for generating a high-quality genome-scale metabolic reconstruction
-
Thiele I, Palsson BØ. A protocol for generating a high-quality genome-scale metabolic reconstruction. Nat Protoc. 2010;5:93-121.
-
(2010)
Nat Protoc
, vol.5
, pp. 93-121
-
-
Thiele, I.1
Palsson, B.2
-
2
-
-
63549148162
-
Genome-scale reconstruction of Escherichia coli's transcriptional and translational machinery: a knowledge base, its mathematical formulation, and its functional characterization
-
Thiele I, Jamshidi N, Fleming RMT, Palsson BØ. Genome-scale reconstruction of Escherichia coli's transcriptional and translational machinery: a knowledge base, its mathematical formulation, and its functional characterization. PLoS Comput Biol. 2009;5:e1000312.
-
(2009)
PLoS Comput Biol
, vol.5
, pp. e1000312
-
-
Thiele, I.1
Jamshidi, N.2
Fleming, R.M.T.3
Palsson, B.4
-
3
-
-
58549108388
-
Reconstruction of biochemical networks in microorganisms
-
Feist AM, Herrgård MJ, Thiele I, Reed JL, Palsson BØ. Reconstruction of biochemical networks in microorganisms. Nat Rev Microbiol. 2008;7:129-43.
-
(2008)
Nat Rev Microbiol
, vol.7
, pp. 129-143
-
-
Feist, A.M.1
Herrgård, M.J.2
Thiele, I.3
Reed, J.L.4
Palsson, B.5
-
4
-
-
30044433043
-
The global transcriptional regulatory network for metabolism in Escherichia coli exhibits few dominant functional states
-
Barrett CL, Herring CD, Reed JL, Palsson BO. The global transcriptional regulatory network for metabolism in Escherichia coli exhibits few dominant functional states. Proc Natl Acad Sci U S A. 2005;102:19103-8.
-
(2005)
Proc Natl Acad Sci U S A
, vol.102
, pp. 19103-19108
-
-
Barrett, C.L.1
Herring, C.D.2
Reed, J.L.3
Palsson, B.O.4
-
5
-
-
77951612556
-
BiGG: a Biochemical Genetic and Genomic knowledgebase of large scale metabolic reconstructions
-
Schellenberger J, Park JO, Conrad TM, Palsson BØ. BiGG: a Biochemical Genetic and Genomic knowledgebase of large scale metabolic reconstructions. BMC Bioinformatics. 2010;11:213.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 213
-
-
Schellenberger, J.1
Park, J.O.2
Conrad, T.M.3
Palsson, B.4
-
6
-
-
84921340441
-
Model-driven discovery of underground metabolic functions in Escherichia coli. Proceedings of the National Academy of Sciences
-
Guzmán GI, Utrilla J, Nurk S, Brunk E, Monk JM, Ebrahim A, et al. Model-driven discovery of underground metabolic functions in Escherichia coli. Proceedings of the National Academy of Sciences. Nat Acad Sci. 2015;112:929-34.
-
(2015)
Nat Acad Sci
, vol.112
, pp. 929-934
-
-
Guzmán, G.I.1
Utrilla, J.2
Nurk, S.3
Brunk, E.4
Monk, J.M.5
Ebrahim, A.6
-
7
-
-
70349345898
-
Three-dimensional structural view of the central metabolic network of Thermotoga maritima
-
Zhang Y, Thiele I, Weekes D, Li Z, Jaroszewski L, Ginalski K, et al. Three-dimensional structural view of the central metabolic network of Thermotoga maritima. Science. 2009;325:1544-9.
-
(2009)
Science
, vol.325
, pp. 1544-1549
-
-
Zhang, Y.1
Thiele, I.2
Weekes, D.3
Li, Z.4
Jaroszewski, L.5
Ginalski, K.6
-
8
-
-
84903287056
-
Predicting microbial growth
-
Monk J, Palsson BO. Predicting microbial growth. Science. 2014;344:1448-9.
-
(2014)
Science
, vol.344
, pp. 1448-1449
-
-
Monk, J.1
Palsson, B.O.2
-
9
-
-
76349088732
-
Metabolic investigation of host/pathogen interaction using MS2-infected Escherichia coli
-
Jain R, Srivastava R. Metabolic investigation of host/pathogen interaction using MS2-infected Escherichia coli. BMC Syst Biol. 2009;3:121.
-
(2009)
BMC Syst Biol
, vol.3
, pp. 121
-
-
Jain, R.1
Srivastava, R.2
-
10
-
-
78650215306
-
Dynamic flux balance modeling of microbial co-cultures for efficient batch fermentation of glucose and xylose mixtures
-
Hanly TJ, Henson MA. Dynamic flux balance modeling of microbial co-cultures for efficient batch fermentation of glucose and xylose mixtures. Biotechnol Bioeng. 2011;108:376-85.
-
(2011)
Biotechnol Bioeng
, vol.108
, pp. 376-385
-
-
Hanly, T.J.1
Henson, M.A.2
-
11
-
-
80054115962
-
A computational exploration of bacterial metabolic diversity identifying metabolic interactions and growth-efficient strain communities
-
Tzamali E, Poirazi P, Tollis IG, Reczko M. A computational exploration of bacterial metabolic diversity identifying metabolic interactions and growth-efficient strain communities. BMC Syst Biol. 2011;5:167.
-
(2011)
BMC Syst Biol
, vol.5
, pp. 167
-
-
Tzamali, E.1
Poirazi, P.2
Tollis, I.G.3
Reczko, M.4
-
12
-
-
77956415336
-
Emergent cooperation in microbial metabolism
-
Wintermute EH, Silver PA. Emergent cooperation in microbial metabolism. Mol Syst Biol. 2010;6:407.
-
(2010)
Mol Syst Biol
, vol.6
, pp. 407
-
-
Wintermute, E.H.1
Silver, P.A.2
-
13
-
-
84901273253
-
Metabolic resource allocation in individual microbes determines ecosystem interactions and spatial dynamics
-
Harcombe WR, Riehl WJ, Dukovski I, Granger BR, Betts A, Lang AH, et al. Metabolic resource allocation in individual microbes determines ecosystem interactions and spatial dynamics. Cell Rep. 2014;7:1104-15.
-
(2014)
Cell Rep
, vol.7
, pp. 1104-1115
-
-
Harcombe, W.R.1
Riehl, W.J.2
Dukovski, I.3
Granger, B.R.4
Betts, A.5
Lang, A.H.6
-
14
-
-
78649677586
-
Environments that induce synthetic microbial ecosystems
-
Klitgord N, Segrè D. Environments that induce synthetic microbial ecosystems. PLoS Comput Biol. 2010;6:e1001002.
-
(2010)
PLoS Comput Biol
, vol.6
, pp. e1001002
-
-
Klitgord, N.1
Segrè, D.2
-
15
-
-
77954510016
-
Biocharts: a visual formalism for complex biological systems
-
Kugler H, Larjo A, Harel D. Biocharts: a visual formalism for complex biological systems. J R Soc Interface. 2010;7:1015-24.
-
(2010)
J R Soc Interface
, vol.7
, pp. 1015-1024
-
-
Kugler, H.1
Larjo, A.2
Harel, D.3
-
16
-
-
78049445175
-
Drug off-target effects predicted using structural analysis in the context of a metabolic network model
-
Chang RL, Xie L, Xie L, Bourne PE, Palsson BØ. Drug off-target effects predicted using structural analysis in the context of a metabolic network model. PLoS Comput Biol. 2010;6:e1000938.
-
(2010)
PLoS Comput Biol
, vol.6
, pp. e1000938
-
-
Chang, R.L.1
Xie, L.2
Xie, L.3
Bourne, P.E.4
Palsson, B.5
-
17
-
-
84878756325
-
Structural systems biology evaluation of metabolic thermotolerance in Escherichia coli
-
Chang RL, Andrews K, Kim D, Li Z, Godzik A, Palsson BO. Structural systems biology evaluation of metabolic thermotolerance in Escherichia coli. Science. 2013;340:1220-3.
-
(2013)
Science
, vol.340
, pp. 1220-1223
-
-
Chang, R.L.1
Andrews, K.2
Kim, D.3
Li, Z.4
Godzik, A.5
Palsson, B.O.6
-
19
-
-
33644550021
-
Structural systems biology: modelling protein interactions
-
Aloy P, Russell RB. Structural systems biology: modelling protein interactions. Nat Rev Mol Cell Biol. 2006;7:188-97.
-
(2006)
Nat Rev Mol Cell Biol
, vol.7
, pp. 188-197
-
-
Aloy, P.1
Russell, R.B.2
-
20
-
-
34249871616
-
The hard cell: from proteomics to a whole cell model
-
Betts MJ, Russell RB. The hard cell: from proteomics to a whole cell model. FEBS Lett. 2007;581:2870-6.
-
(2007)
FEBS Lett
, vol.581
, pp. 2870-2876
-
-
Betts, M.J.1
Russell, R.B.2
-
21
-
-
70849132924
-
Proteome organization in a genome-reduced bacterium
-
Kühner S, van Noort V, Betts MJ, Leo-Macias A, Batisse C, Rode M, et al. Proteome organization in a genome-reduced bacterium. Science. 2009;326:1235-40.
-
(2009)
Science
, vol.326
, pp. 1235-1240
-
-
Kühner, S.1
Noort, V.2
Betts, M.J.3
Leo-Macias, A.4
Batisse, C.5
Rode, M.6
-
22
-
-
1042298843
-
Computational design of protein--protein interactions
-
Kortemme T, Baker D. Computational design of protein--protein interactions. Curr Opin Chem Biol. 2004;8:91-7.
-
(2004)
Curr Opin Chem Biol
, vol.8
, pp. 91-97
-
-
Kortemme, T.1
Baker, D.2
-
23
-
-
84867881743
-
Structure-based prediction of protein-protein interactions on a genome-wide scale
-
Zhang QC, Petrey D, Deng L, Qiang L, Shi Y, Thu CA, et al. Structure-based prediction of protein-protein interactions on a genome-wide scale. Nature. 2012;490:556-60.
-
(2012)
Nature
, vol.490
, pp. 556-560
-
-
Zhang, Q.C.1
Petrey, D.2
Deng, L.3
Qiang, L.4
Shi, Y.5
Thu, C.A.6
-
24
-
-
84863010950
-
Three-dimensional reconstruction of protein networks provides insight into human genetic disease
-
Wang X, Wei X, Thijssen B, Das J, Lipkin SM, Yu H. Three-dimensional reconstruction of protein networks provides insight into human genetic disease. Nat Biotechnol. 2012;30:159-64.
-
(2012)
Nat Biotechnol
, vol.30
, pp. 159-164
-
-
Wang, X.1
Wei, X.2
Thijssen, B.3
Das, J.4
Lipkin, S.M.5
Yu, H.6
-
25
-
-
84868094052
-
A structural systems biology approach for quantifying the systemic consequences of missense mutations in proteins
-
Cheng TMK, Goehring L, Jeffery L, Lu Y-E, Hayles J, Novák B, et al. A structural systems biology approach for quantifying the systemic consequences of missense mutations in proteins. PLoS Comput Biol. 2012;8:e1002738.
-
(2012)
PLoS Comput Biol
, vol.8
, pp. e1002738
-
-
Cheng, T.M.K.1
Goehring, L.2
Jeffery, L.3
Lu, Y.-E.4
Hayles, J.5
Novák, B.6
-
26
-
-
84876529328
-
The RCSB Protein Data Bank: new resources for research and education
-
Rose PW, Bi C, Bluhm WF, Christie CH, Dimitropoulos D, Dutta S, et al. The RCSB Protein Data Bank: new resources for research and education. Nucleic Acids Res. 2013;41:D475-82.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. D475-D482
-
-
Rose, P.W.1
Bi, C.2
Bluhm, W.F.3
Christie, C.H.4
Dimitropoulos, D.5
Dutta, S.6
-
27
-
-
80054069179
-
A comprehensive genome-scale reconstruction of Escherichia coli metabolism?
-
Orth JD, Conrad TM, Na J, Lerman JA, Nam H, Feist AM, et al. A comprehensive genome-scale reconstruction of Escherichia coli metabolism? Mol Syst Biol. 2011;7:535.
-
(2011)
Mol Syst Biol
, vol.7
, pp. 535
-
-
Orth, J.D.1
Conrad, T.M.2
Na, J.3
Lerman, J.A.4
Nam, H.5
Feist, A.M.6
-
28
-
-
77954065271
-
I-TASSER: a unified platform for automated protein structure and function prediction
-
Roy A, Kucukural A, Zhang Y. I-TASSER: a unified platform for automated protein structure and function prediction. Nat Protoc. 2010;5:725-38.
-
(2010)
Nat Protoc
, vol.5
, pp. 725-738
-
-
Roy, A.1
Kucukural, A.2
Zhang, Y.3
-
29
-
-
34249869832
-
Ab initio modeling of small proteins by iterative TASSER simulations
-
Wu S, Skolnick J, Zhang Y. Ab initio modeling of small proteins by iterative TASSER simulations. BMC Biol. 2007;5:17.
-
(2007)
BMC Biol
, vol.5
, pp. 17
-
-
Wu, S.1
Skolnick, J.2
Zhang, Y.3
-
30
-
-
74249106219
-
I-TASSER: Fully automated protein structure prediction in CASP8. Proteins: Struct Funct Bioinf
-
Zhang Y. I-TASSER: Fully automated protein structure prediction in CASP8. Proteins: Struct Funct Bioinf. Wiley Online Library. 2009;77:100-13.
-
(2009)
Wiley Online Library
, vol.77
, pp. 100-113
-
-
Zhang, Y.1
-
31
-
-
36749103110
-
Automated server predictions in CASP7. Proteins: Struct Funct Bioinf
-
Battey JND, Kopp J, Bordoli L, Read RJ, Clarke ND, Schwede T. Automated server predictions in CASP7. Proteins: Struct Funct Bioinf. Wiley Online Library. 2007;69:68-82.
-
(2007)
Wiley Online Library
, vol.69
, pp. 68-82
-
-
Battey, J.N.D.1
Kopp, J.2
Bordoli, L.3
Read, R.J.4
Clarke, N.D.5
Schwede, T.6
-
32
-
-
36749061828
-
Template-based modeling and free modeling by I-TASSER in CASP7. Proteins: Struct Funct Bioinf
-
Zhang Y. Template-based modeling and free modeling by I-TASSER in CASP7. Proteins: Struct Funct Bioinf. Wiley Online Library. 2007;69:108-17.
-
(2007)
Wiley Online Library
, vol.69
, pp. 108-117
-
-
Zhang, Y.1
-
33
-
-
74249114654
-
Evaluation of template-based models in CASP8 with standard measures. Proteins: Struct Funct Bioinf
-
Cozzetto D, Kryshtafovych A, Fidelis K, Moult J, Rost B, Tramontano A. Evaluation of template-based models in CASP8 with standard measures. Proteins: Struct Funct Bioinf. Wiley Online Library. 2009;77:18-28.
-
(2009)
Wiley Online Library
, vol.77
, pp. 18-28
-
-
Cozzetto, D.1
Kryshtafovych, A.2
Fidelis, K.3
Moult, J.4
Rost, B.5
Tramontano, A.6
-
34
-
-
84902905303
-
Ab Initio structure prediction for Escherichia coli: towards genome-wide protein structure modeling and fold assignment
-
Xu D, Zhang Y. Ab Initio structure prediction for Escherichia coli: towards genome-wide protein structure modeling and fold assignment. Sci Rep. 2013;3.
-
(2013)
Sci Rep.
, pp. 3
-
-
Xu, D.1
Zhang, Y.2
-
35
-
-
84960418348
-
SUNPRO: Structure and function predictions of proteins from representative organisms
-
Zhou H, Gao M, Kumar N, Skolnick J. SUNPRO: Structure and function predictions of proteins from representative organisms. 2012; Available: http://cssb.biology.gatech.edu/sites/default/files/sunpro_unpublished.pdf
-
(2012)
-
-
Zhou, H.1
Gao, M.2
Kumar, N.3
Skolnick, J.4
-
37
-
-
0028892389
-
Are proteins ideal mixtures of amino acids? Analysis of energy parameter sets
-
Godzik A, Koliński A, Skolnick J. Are proteins ideal mixtures of amino acids? Analysis of energy parameter sets. Protein Sci. 1995;4:2107-17.
-
(1995)
Protein Sci
, vol.4
, pp. 2107-2117
-
-
Godzik, A.1
Koliński, A.2
Skolnick, J.3
-
38
-
-
84906288726
-
Comprehensive Natural Products II: Chemistry and Biology
-
Newnes: Elsevier
-
Mander L, Liu H-W. Comprehensive Natural Products II: Chemistry and Biology. Newnes: Elsevier; 2010.
-
(2010)
-
-
Mander, L.1
Liu, H.-W.2
-
40
-
-
84871644215
-
Revealing the structural basis of promiscuous amine transaminase activity
-
Steffen-Munsberg F, Vickers C, Thontowi A, Schätzle S, Meinhardt T, Svedendahl Humble M, et al. Revealing the structural basis of promiscuous amine transaminase activity. Chem Cat Chem. 2013;5:154-7.
-
(2013)
Chem Cat Chem
, vol.5
, pp. 154-157
-
-
Steffen-Munsberg, F.1
Vickers, C.2
Thontowi, A.3
Schätzle, S.4
Meinhardt, T.5
Svedendahl Humble, M.6
-
41
-
-
84869220352
-
Classification of ligand molecules in PDB with fast heuristic graph match algorithm COMPLIG
-
Saito M, Takemura N, Shirai T. Classification of ligand molecules in PDB with fast heuristic graph match algorithm COMPLIG. J Mol Biol. 2012;424:379-90.
-
(2012)
J Mol Biol
, vol.424
, pp. 379-390
-
-
Saito, M.1
Takemura, N.2
Shirai, T.3
-
42
-
-
84960374208
-
RCSB PDB - Drug To PDB IDs Mappings
-
[Internet]. [cited 23 Apr 2015].
-
PDB. RCSB PDB - Drug To PDB IDs Mappings [Internet]. [cited 23 Apr 2015]. Available: http://www.pdb.org/pdb/ligand/drugMapping.do.
-
-
-
-
43
-
-
0001535816
-
Combinatorial preferences affect molecular similarity/diversity calculations using binary fingerprints and Tanimoto coefficients
-
Godden JW, Xue L, Bajorath J. Combinatorial preferences affect molecular similarity/diversity calculations using binary fingerprints and Tanimoto coefficients. J Chem Inf Comput Sci. 2000;40:163-6.
-
(2000)
J Chem Inf Comput Sci
, vol.40
, pp. 163-166
-
-
Godden, J.W.1
Xue, L.2
Bajorath, J.3
-
44
-
-
84899550455
-
Quantifying absolute protein synthesis rates reveals principles underlying allocation of cellular resources
-
Li G-W, Burkhardt D, Gross C, Weissman JS. Quantifying absolute protein synthesis rates reveals principles underlying allocation of cellular resources. Cell. 2014;157:624-35.
-
(2014)
Cell
, vol.157
, pp. 624-635
-
-
Li, G.-W.1
Burkhardt, D.2
Gross, C.3
Weissman, J.S.4
-
45
-
-
13444262374
-
EcoCyc: a comprehensive database resource for Escherichia coli
-
Keseler IM, Collado-Vides J, Gama-Castro S, Ingraham J, Paley S, Paulsen IT, et al. EcoCyc: a comprehensive database resource for Escherichia coli. Nucleic Acids Res. 2005;33:D334-7.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. D334-D337
-
-
Keseler, I.M.1
Collado-Vides, J.2
Gama-Castro, S.3
Ingraham, J.4
Paley, S.5
Paulsen, I.T.6
-
46
-
-
27244436714
-
Expansion of the BioCyc collection of pathway/genome databases to 160 genomes
-
Karp PD, Ouzounis CA, Moore-Kochlacs C, Goldovsky L, Kaipa P, Ahrén D, et al. Expansion of the BioCyc collection of pathway/genome databases to 160 genomes. Nucleic Acids Res. 2005;33:6083-9.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 6083-6089
-
-
Karp, P.D.1
Ouzounis, C.A.2
Moore-Kochlacs, C.3
Goldovsky, L.4
Kaipa, P.5
Ahrén, D.6
-
47
-
-
79954499052
-
A comprehensive protein-centric ID mapping service for molecular data integration
-
Huang H, McGarvey PB, Suzek BE, Mazumder R, Zhang J, Chen Y, et al. A comprehensive protein-centric ID mapping service for molecular data integration. Bioinformatics. 2011;27:1190-1.
-
(2011)
Bioinformatics
, vol.27
, pp. 1190-1191
-
-
Huang, H.1
McGarvey, P.B.2
Suzek, B.E.3
Mazumder, R.4
Zhang, J.5
Chen, Y.6
-
48
-
-
84885367114
-
Genome-scale models of metabolism and gene expression extend and refine growth phenotype prediction
-
O'Brien EJ, Lerman JA, Chang RL, Hyduke DR, Palsson BØ. Genome-scale models of metabolism and gene expression extend and refine growth phenotype prediction. Mol Syst Biol. 2013;9.
-
(2013)
Mol Syst Biol.
, pp. 9
-
-
O'Brien, E.J.1
Lerman, J.A.2
Chang, R.L.3
Hyduke, D.R.4
Palsson, B.Ø.5
-
49
-
-
84896689230
-
Structural, Evolutionary, and Assembly Principles of Protein Oligomerization
-
Newnes: Elsevier
-
Levy ED, Teichmann SA. Structural, Evolutionary, and Assembly Principles of Protein Oligomerization. Oligomerization in Health and Disease. Newnes: Elsevier; 2013. p. 25-51.
-
(2013)
Oligomerization in Health and Disease
, pp. 25-51
-
-
Levy, E.D.1
Teichmann, S.A.2
-
50
-
-
84930722009
-
A streamlined ribosome profiling protocol for the characterization of microorganisms
-
Accepted.
-
Latif H, Szubin R, Tan J, Brunk E, Lechner A, Zengler K, et al. A streamlined ribosome profiling protocol for the characterization of microorganisms. Biotechniques. 2015. Accepted.
-
(2015)
Biotechniques
-
-
Latif, H.1
Szubin, R.2
Tan, J.3
Brunk, E.4
Lechner, A.5
Zengler, K.6
-
51
-
-
62549134121
-
Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling
-
Ingolia NT, Ghaemmaghami S, Newman JRS, Weissman JS. Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling. Science. 2009;324:218-23.
-
(2009)
Science
, vol.324
, pp. 218-223
-
-
Ingolia, N.T.1
Ghaemmaghami, S.2
Newman, J.R.S.3
Weissman, J.S.4
-
52
-
-
0032784646
-
Proteomics: quantitative and physical mapping of cellular proteins
-
Blackstock WP, Weir MP. Proteomics: quantitative and physical mapping of cellular proteins. Trends Biotechnol. 1999;17:121-7.
-
(1999)
Trends Biotechnol
, vol.17
, pp. 121-127
-
-
Blackstock, W.P.1
Weir, M.P.2
-
53
-
-
79959424627
-
Quantitative, high-resolution proteomics for data-driven systems biology
-
Cox J, Mann M. Quantitative, high-resolution proteomics for data-driven systems biology. Annu Rev Biochem. 2011;80:273-99.
-
(2011)
Annu Rev Biochem
, vol.80
, pp. 273-299
-
-
Cox, J.1
Mann, M.2
-
55
-
-
34347258175
-
Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox
-
Becker SA, Feist AM, Mo ML, Hannum G, Palsson BØ, Herrgard MJ. Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox. Nat Protoc. 2007;2:727-38.
-
(2007)
Nat Protoc
, vol.2
, pp. 727-738
-
-
Becker, S.A.1
Feist, A.M.2
Mo, M.L.3
Hannum, G.4
Palsson, B.5
Herrgard, M.J.6
-
57
-
-
0029653518
-
Whole-genome random sequencing and assembly of Haemophilus influenzae Rd
-
Fleischmann RD, Adams MD, White O, Clayton RA, Kirkness EF, Kerlavage AR, et al. Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. Science. 1995;269:496-512.
-
(1995)
Science
, vol.269
, pp. 496-512
-
-
Fleischmann, R.D.1
Adams, M.D.2
White, O.3
Clayton, R.A.4
Kirkness, E.F.5
Kerlavage, A.R.6
-
58
-
-
10544255079
-
Complete sequence analysis of the genome of the bacterium Mycoplasma pneumoniae
-
Himmelreich R, Hilbert H, Plagens H, Pirkl E, Li BC, Herrmann R. Complete sequence analysis of the genome of the bacterium Mycoplasma pneumoniae. Nucleic Acids Res. 1996;24:4420-49.
-
(1996)
Nucleic Acids Res
, vol.24
, pp. 4420-4449
-
-
Himmelreich, R.1
Hilbert, H.2
Plagens, H.3
Pirkl, E.4
Li, B.C.5
Herrmann, R.6
-
59
-
-
15444350252
-
The complete genome sequence of Escherichia coli K-12
-
Blattner FR, Plunkett 3rd G, Bloch CA, Perna NT, Burland V, Riley M, et al. The complete genome sequence of Escherichia coli K-12. Science. 1997;277:1453-62.
-
(1997)
Science
, vol.277
, pp. 1453-1462
-
-
Blattner, F.R.1
Plunkett, G.2
Bloch, C.A.3
Perna, N.T.4
Burland, V.5
Riley, M.6
-
60
-
-
0030731108
-
The complete genome sequence of the gram-positive bacterium Bacillus subtilis
-
Kunst F, Ogasawara N, Moszer I, Albertini AM, Alloni G, Azevedo V, et al. The complete genome sequence of the gram-positive bacterium Bacillus subtilis. Nature. 1997;390:249-56.
-
(1997)
Nature
, vol.390
, pp. 249-256
-
-
Kunst, F.1
Ogasawara, N.2
Moszer, I.3
Albertini, A.M.4
Alloni, G.5
Azevedo, V.6
-
61
-
-
0032568375
-
The complete genome of the hyperthermophilic bacterium Aquifex aeolicus
-
Deckert G, Warren PV, Gaasterland T, Young WG, Lenox AL, Graham DE, et al. The complete genome of the hyperthermophilic bacterium Aquifex aeolicus. Nature. 1998;392:353-8.
-
(1998)
Nature
, vol.392
, pp. 353-358
-
-
Deckert, G.1
Warren, P.V.2
Gaasterland, T.3
Young, W.G.4
Lenox, A.L.5
Graham, D.E.6
-
62
-
-
0032540874
-
Complete genome sequence of Treponema pallidum, the syphilis spirochete
-
Fraser CM, Norris SJ, Weinstock GM, White O, Sutton GG, Dodson R, et al. Complete genome sequence of Treponema pallidum, the syphilis spirochete. Science. 1998;281:375-88.
-
(1998)
Science
, vol.281
, pp. 375-388
-
-
Fraser, C.M.1
Norris, S.J.2
Weinstock, G.M.3
White, O.4
Sutton, G.G.5
Dodson, R.6
-
63
-
-
0033609333
-
Evidence for lateral gene transfer between Archaea and bacteria from genome sequence of Thermotoga maritima
-
Nelson KE, Clayton RA, Gill SR, Gwinn ML, Dodson RJ, Haft DH, et al. Evidence for lateral gene transfer between Archaea and bacteria from genome sequence of Thermotoga maritima. Nature. 1999;399:323-9.
-
(1999)
Nature
, vol.399
, pp. 323-329
-
-
Nelson, K.E.1
Clayton, R.A.2
Gill, S.R.3
Gwinn, M.L.4
Dodson, R.J.5
Haft, D.H.6
-
64
-
-
0033533618
-
Evolutionary genomics: Thermotoga heats up lateral gene transfer
-
Logsdon Jr JM, Faguy DM. Evolutionary genomics: Thermotoga heats up lateral gene transfer. Curr Biol. 1999;9:R747-51.
-
(1999)
Curr Biol
, vol.9
, pp. R747-R751
-
-
Logsdon, J.M.1
Faguy, D.M.2
-
65
-
-
0027057526
-
A database of protein structure families with common folding motifs
-
Holm L, Ouzounis C, Sander C, Tuparev G, Vriend G. A database of protein structure families with common folding motifs. Protein Sci. 1992;1:1691-8.
-
(1992)
Protein Sci
, vol.1
, pp. 1691-1698
-
-
Holm, L.1
Ouzounis, C.2
Sander, C.3
Tuparev, G.4
Vriend, G.5
-
66
-
-
84896722637
-
Global patterns of protein domain gain and loss in superkingdoms
-
Nasir A, Kim KM, Caetano-Anollés G. Global patterns of protein domain gain and loss in superkingdoms. PLoS Comput Biol. 2014;10:e1003452.
-
(2014)
PLoS Comput Biol
, vol.10
, pp. e1003452
-
-
Nasir, A.1
Kim, K.M.2
Caetano-Anollés, G.3
-
67
-
-
3042581007
-
Flexible structure alignment by chaining aligned fragment pairs allowing twists
-
Ye Y, Godzik A. Flexible structure alignment by chaining aligned fragment pairs allowing twists. Bioinformatics. 2003;19 Suppl 2:ii246-55.
-
(2003)
Bioinformatics
, vol.19
, pp. ii246-ii255
-
-
Ye, Y.1
Godzik, A.2
-
68
-
-
78449284386
-
Pre-calculated protein structure alignments at the RCSB PDB website
-
Prlic A, Bliven S, Rose PW, Bluhm WF, Bizon C, Godzik A, et al. Pre-calculated protein structure alignments at the RCSB PDB website. Bioinformatics. 2010;26:2983-5.
-
(2010)
Bioinformatics
, vol.26
, pp. 2983-2985
-
-
Prlic, A.1
Bliven, S.2
Rose, P.W.3
Bluhm, W.F.4
Bizon, C.5
Godzik, A.6
-
69
-
-
0026716643
-
Membrane protein structure prediction: Hydrophobicity analysis and the positive-inside rule
-
von Heijne G. Membrane protein structure prediction: Hydrophobicity analysis and the positive-inside rule. J Mol Biol. 1992;225:487-94.
-
(1992)
J Mol Biol
, vol.225
, pp. 487-494
-
-
Heijne, G.1
-
70
-
-
0028211273
-
A model recognition approach to the prediction of all-helical membrane protein structure and topology
-
Jones DT, Taylor WR, Thornton JM. A model recognition approach to the prediction of all-helical membrane protein structure and topology. Biochemistry. 1994;33:3038-49.
-
(1994)
Biochemistry
, vol.33
, pp. 3038-3049
-
-
Jones, D.T.1
Taylor, W.R.2
Thornton, J.M.3
-
71
-
-
0009969074
-
Structural energetics of protein stability and folding cooperativity
-
Murphy KP, Freire E. Structural energetics of protein stability and folding cooperativity. J Macromol Sci Part A Pure Appl Chem. 1993;65:1939-46.
-
(1993)
J Macromol Sci Part A Pure Appl Chem
, vol.65
, pp. 1939-1946
-
-
Murphy, K.P.1
Freire, E.2
-
72
-
-
84878391705
-
Engineered thermostable fungal Cel6A and Cel7A cellobiohydrolases hydrolyze cellulose efficiently at elevated temperatures
-
Wu I, Arnold FH. Engineered thermostable fungal Cel6A and Cel7A cellobiohydrolases hydrolyze cellulose efficiently at elevated temperatures. Biotechnol Bioeng. 2013;110:1874-83.
-
(2013)
Biotechnol Bioeng
, vol.110
, pp. 1874-1883
-
-
Wu, I.1
Arnold, F.H.2
-
73
-
-
0027349239
-
Hydration and heat stability effects on protein unfolding
-
Oobatake M, Ooi T. Hydration and heat stability effects on protein unfolding. Prog Biophys Mol Biol. 1993;59:237-84.
-
(1993)
Prog Biophys Mol Biol
, vol.59
, pp. 237-284
-
-
Oobatake, M.1
Ooi, T.2
-
75
-
-
80052449370
-
How do thermophilic proteins and proteomes withstand high temperature?
-
Sawle L, Ghosh K. How do thermophilic proteins and proteomes withstand high temperature? Biophys J. 2011;101:217-27.
-
(2011)
Biophys J
, vol.101
, pp. 217-227
-
-
Sawle, L.1
Ghosh, K.2
-
76
-
-
0034191064
-
The stability of thermophilic proteins: a study based on comprehensive genome comparison
-
Das R, Gerstein M. The stability of thermophilic proteins: a study based on comprehensive genome comparison. Funct Integr Genomics. 2000;1:76-88.
-
(2000)
Funct Integr Genomics
, vol.1
, pp. 76-88
-
-
Das, R.1
Gerstein, M.2
-
77
-
-
20444389830
-
Structural genomics of thermotoga maritima proteins shows that contact order is a major determinant of protein thermostability
-
Robinson-Rechavi M, Godzik A. Structural genomics of thermotoga maritima proteins shows that contact order is a major determinant of protein thermostability. Structure. 2005;13:857-60.
-
(2005)
Structure
, vol.13
, pp. 857-860
-
-
Robinson-Rechavi, M.1
Godzik, A.2
-
78
-
-
0031573453
-
Closed structure of phosphoglycerate kinase from Thermotoga maritima reveals the catalytic mechanism and determinants of thermal stability
-
Auerbach G, Huber R, Grättinger M, Zaiss K, Schurig H, Jaenicke R, et al. Closed structure of phosphoglycerate kinase from Thermotoga maritima reveals the catalytic mechanism and determinants of thermal stability. Structure. 1997;5:1475-83.
-
(1997)
Structure
, vol.5
, pp. 1475-1483
-
-
Auerbach, G.1
Huber, R.2
Grättinger, M.3
Zaiss, K.4
Schurig, H.5
Jaenicke, R.6
-
79
-
-
0028798334
-
Cloning, sequencing, expression and characterization of the gene encoding the 3-phosphoglycerate kinase- triosephosphate isomerase fusion protein from Thermotoga maritima
-
Beaucamp N, Ostendorp R, Schurig H, Jaenicke R. Cloning, sequencing, expression and characterization of the gene encoding the 3-phosphoglycerate kinase- triosephosphate isomerase fusion protein from Thermotoga maritima. Protein Pept Lett. 1995;2:281-6.
-
(1995)
Protein Pept Lett
, vol.2
, pp. 281-286
-
-
Beaucamp, N.1
Ostendorp, R.2
Schurig, H.3
Jaenicke, R.4
-
80
-
-
46349105337
-
Probing the functional tolerance of the b subunit of Escherichia coli ATP synthase for sequence manipulation through a chimera approach
-
Bi Y, Watts JC, Bamford PK, Briere L-AK, Dunn SD. Probing the functional tolerance of the b subunit of Escherichia coli ATP synthase for sequence manipulation through a chimera approach. Biochim Biophys Acta. 2008;1777:583-91.
-
(2008)
Biochim Biophys Acta
, vol.1777
, pp. 583-591
-
-
Bi, Y.1
Watts, J.C.2
Bamford, P.K.3
Briere, L.-A.4
Dunn, S.D.5
-
81
-
-
84905969902
-
Network-level architecture and the evolutionary potential of underground metabolism
-
Notebaart RA, Szappanos B, Kintses B, Pál F, Györkei Á, Bogos B, et al. Network-level architecture and the evolutionary potential of underground metabolism. Proc Nat Acad Sci. 2014;111:11762-7.
-
(2014)
Proc Nat Acad Sci
, vol.111
, pp. 11762-11767
-
-
Notebaart, R.A.1
Szappanos, B.2
Kintses, B.3
Pál, F.G.4
Bogos, B.5
-
82
-
-
84865571240
-
Network context and selection in the evolution to enzyme specificity
-
Nam H, Lewis NE, Lerman JA, Lee D-H, Chang RL, Kim D, et al. Network context and selection in the evolution to enzyme specificity. Science. 2012;337:1101-4.
-
(2012)
Science
, vol.337
, pp. 1101-1104
-
-
Nam, H.1
Lewis, N.E.2
Lerman, J.A.3
Lee, D.-H.4
Chang, R.L.5
Kim, D.6
-
83
-
-
33751226921
-
Systems approach to refining genome annotation
-
Reed JL, Patel TR, Chen KH, Joyce AR, Applebee MK, Herring CD, et al. Systems approach to refining genome annotation. Proc Natl Acad Sci U S A. 2006;103:17480-4.
-
(2006)
Proc Natl Acad Sci U S A
, vol.103
, pp. 17480-17484
-
-
Reed, J.L.1
Patel, T.R.2
Chen, K.H.3
Joyce, A.R.4
Applebee, M.K.5
Herring, C.D.6
-
84
-
-
84862159261
-
Gap-filling analysis of the iJO1366 Escherichia coli metabolic network reconstruction for discovery of metabolic functions
-
Orth JD, Palsson B. Gap-filling analysis of the iJO1366 Escherichia coli metabolic network reconstruction for discovery of metabolic functions. BMC Syst Biol. 2012;6:30.
-
(2012)
BMC Syst Biol
, vol.6
, pp. 30
-
-
Orth, J.D.1
Palsson, B.2
-
85
-
-
0028593509
-
Protein superfamilies and domain superfolds
-
Orengo CA, Jones DT, Thornton JM. Protein superfamilies and domain superfolds. Nature. 1994;372:631-4.
-
(1994)
Nature
, vol.372
, pp. 631-634
-
-
Orengo, C.A.1
Jones, D.T.2
Thornton, J.M.3
-
86
-
-
0000454088
-
Recurring structural motifs in proteins with different functions
-
Orengo CA, Flores TP, Jones DT, Taylor WR, Thornton JM. Recurring structural motifs in proteins with different functions. Curr Biol. 1993;3:131-9.
-
(1993)
Curr Biol
, vol.3
, pp. 131-139
-
-
Orengo, C.A.1
Flores, T.P.2
Jones, D.T.3
Taylor, W.R.4
Thornton, J.M.5
-
87
-
-
33646178621
-
Designed divergent evolution of enzyme function
-
Yoshikuni Y, Ferrin TE, Keasling JD. Designed divergent evolution of enzyme function. Nature. 2006;440:1078-82.
-
(2006)
Nature
, vol.440
, pp. 1078-1082
-
-
Yoshikuni, Y.1
Ferrin, T.E.2
Keasling, J.D.3
-
88
-
-
84866172183
-
Directed evolution of xylose isomerase for improved xylose catabolism and fermentation in the yeast Saccharomyces cerevisiae
-
Lee S-M, Jellison T, Alper HS. Directed evolution of xylose isomerase for improved xylose catabolism and fermentation in the yeast Saccharomyces cerevisiae. Appl Environ Microbiol. 2012;78:5708-16.
-
(2012)
Appl Environ Microbiol
, vol.78
, pp. 5708-5716
-
-
Lee, S.-M.1
Jellison, T.2
Alper, H.S.3
-
89
-
-
84874990225
-
Engineering specialized metabolic pathways-is there a room for enzyme improvements?
-
Bar-Even A, Tawfik DS. Engineering specialized metabolic pathways-is there a room for enzyme improvements? Curr Opin Biotechnol. 2013;24:310-9.
-
(2013)
Curr Opin Biotechnol
, vol.24
, pp. 310-319
-
-
Bar-Even, A.1
Tawfik, D.S.2
-
90
-
-
77953778296
-
History of biological metal utilization inferred through phylogenomic analysis of protein structures
-
Dupont CL, Butcher A, Valas RE, Bourne PE, Caetano-Anollés G. History of biological metal utilization inferred through phylogenomic analysis of protein structures. Proc Nat Acad Sci. 2010;107:10567-72.
-
(2010)
Proc Nat Acad Sci
, vol.107
, pp. 10567-10572
-
-
Dupont, C.L.1
Butcher, A.2
Valas, R.E.3
Bourne, P.E.4
Caetano-Anollés, G.5
-
91
-
-
0038486929
-
An evolutionarily structured universe of protein architecture
-
Caetano-Anollés G, Caetano-Anollés D. An evolutionarily structured universe of protein architecture. Genome Res. 2003;13:1563-71.
-
(2003)
Genome Res
, vol.13
, pp. 1563-1571
-
-
Caetano-Anollés, G.1
Caetano-Anollés, D.2
-
92
-
-
59849127275
-
The origin, evolution and structure of the protein world
-
Caetano-Anolles G, Wang M, Caetano-Anolles D, Mittenthal J. The origin, evolution and structure of the protein world. Portland Press Ltd. 2009;417:621-37.
-
(2009)
Portland Press Ltd
, vol.417
, pp. 621-637
-
-
Caetano-Anolles, G.1
Wang, M.2
Caetano-Anolles, D.3
Mittenthal, J.4
-
93
-
-
56949085134
-
The origin and evolution of modern metabolism
-
Caetano-Anollés G, Yafremava LS, Gee H, Caetano-Anollés D, Kim HS, Mittenthal JE. The origin and evolution of modern metabolism. Int J Biochem Cell Biol. 2009;41:285-97.
-
(2009)
Int J Biochem Cell Biol
, vol.41
, pp. 285-297
-
-
Caetano-Anollés, G.1
Yafremava, L.S.2
Gee, H.3
Caetano-Anollés, D.4
Kim, H.S.5
Mittenthal, J.E.6
-
94
-
-
58149185126
-
BRENDA, AMENDA and FRENDA the enzyme information system: new content and tools in 2009
-
Chang A, Scheer M, Grote A, Schomburg I, Schomburg D. BRENDA, AMENDA and FRENDA the enzyme information system: new content and tools in 2009. Nucleic Acids Res. 2009;37:D588-92.
-
(2009)
Nucleic Acids Res
, vol.37
, pp. D588-D592
-
-
Chang, A.1
Scheer, M.2
Grote, A.3
Schomburg, I.4
Schomburg, D.5
-
95
-
-
0345863907
-
BRENDA, the enzyme database: updates and major new developments
-
Schomburg I, Chang A, Ebeling C, Gremse M, Heldt C, Huhn G, et al. BRENDA, the enzyme database: updates and major new developments. Nucleic Acids Res. 2004;32:D431-3.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. D431-D433
-
-
Schomburg, I.1
Chang, A.2
Ebeling, C.3
Gremse, M.4
Heldt, C.5
Huhn, G.6
-
96
-
-
0037255072
-
The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003
-
Boeckmann B, Bairoch A, Apweiler R, Blatter M-C, Estreicher A, Gasteiger E, et al. The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003. Nucleic Acids Res. 2003;31:365-70.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 365-370
-
-
Boeckmann, B.1
Bairoch, A.2
Apweiler, R.3
Blatter, M.-C.4
Estreicher, A.5
Gasteiger, E.6
-
97
-
-
9144257886
-
The Pfam protein families database
-
Bateman A, Coin L, Durbin R, Finn RD, Hollich V, Griffiths-Jones S, et al. The Pfam protein families database. Nucleic Acids Res. 2004;32:D138-41.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. D138-D141
-
-
Bateman, A.1
Coin, L.2
Durbin, R.3
Finn, R.D.4
Hollich, V.5
Griffiths-Jones, S.6
-
98
-
-
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;247:536-40.
-
(1995)
J Mol Biol
, vol.247
, pp. 536-540
-
-
Murzin, A.G.1
Brenner, S.E.2
Hubbard, T.3
Chothia, C.4
-
99
-
-
79957788878
-
ProDy: protein dynamics inferred from theory and experiments
-
Bakan A, Meireles LM, Bahar I. ProDy: protein dynamics inferred from theory and experiments. Bioinformatics. 2011;27:1575-7.
-
(2011)
Bioinformatics
, vol.27
, pp. 1575-1577
-
-
Bakan, A.1
Meireles, L.M.2
Bahar, I.3
-
100
-
-
84884261877
-
Python for data analysis: Data wrangling with Pandas, NumPy, and IPython
-
Newnes: "O'Reilly Media, Inc."
-
McKinney W. Python for data analysis: Data wrangling with Pandas, NumPy, and IPython. Newnes: "O'Reilly Media, Inc." 2012.
-
(2012)
-
-
McKinney, W.1
-
101
-
-
65649092976
-
Biopython: freely available Python tools for computational molecular biology and bioinformatics
-
Cock PJA, Antao T, Chang JT, Chapman BA, Cox CJ, Dalke A, et al. Biopython: freely available Python tools for computational molecular biology and bioinformatics. Bioinformatics. 2009;25:1422-3.
-
(2009)
Bioinformatics
, vol.25
, pp. 1422-1423
-
-
Cock, P.J.A.1
Antao, T.2
Chang, J.T.3
Chapman, B.A.4
Cox, C.J.5
Dalke, A.6
-
103
-
-
75549090603
-
The Pfam protein families database
-
Finn RD, Mistry J, Tate J, Coggill P, Heger A, Pollington JE, et al. The Pfam protein families database. Nucleic Acids Res. 2010;38(Database issue):D211-22.
-
(2010)
Nucleic Acids Res
, vol.38
, Issue.DATABASE ISSUE
, pp. D211-D222
-
-
Finn, R.D.1
Mistry, J.2
Tate, J.3
Coggill, P.4
Heger, A.5
Pollington, J.E.6
-
104
-
-
84891782659
-
Pfam: the protein families database
-
Finn RD, Bateman A, Clements J, Coggill P, Eberhardt RY, Eddy SR, et al. Pfam: the protein families database. Nucleic Acids Res. 2014;42(Database issue):D222-30.
-
(2014)
Nucleic Acids Res
, vol.42
, Issue.DATABASE ISSUE
, pp. D222-D230
-
-
Finn, R.D.1
Bateman, A.2
Clements, J.3
Coggill, P.4
Eberhardt, R.Y.5
Eddy, S.R.6
-
105
-
-
77952988108
-
A new generation of homology search tools based on probabilistic inference
-
Eddy SR. A new generation of homology search tools based on probabilistic inference. Genome Inform. 2009;23:205-11.
-
(2009)
Genome Inform
, vol.23
, pp. 205-211
-
-
Eddy, S.R.1
-
106
-
-
84880213068
-
Challenges in homology search: HMMER3 and convergent evolution of coiled-coil regions
-
Mistry J, Finn RD, Eddy SR, Bateman A, Punta M. Challenges in homology search: HMMER3 and convergent evolution of coiled-coil regions. Nucleic Acids Res. 2013;41:e121.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. e121
-
-
Mistry, J.1
Finn, R.D.2
Eddy, S.R.3
Bateman, A.4
Punta, M.5
-
107
-
-
0347755642
-
ProTherm, version 4.0: thermodynamic database for proteins and mutants
-
Bava KA, Gromiha MM, Uedaira H, Kitajima K, Sarai A. ProTherm, version 4.0: thermodynamic database for proteins and mutants. Nucleic Acids Res. 2004;32:D120-1.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. D120-D121
-
-
Bava, K.A.1
Gromiha, M.M.2
Uedaira, H.3
Kitajima, K.4
Sarai, A.5
-
108
-
-
70449708890
-
Predicting melting temperature directly from protein sequences
-
Ku T, Lu P, Chan C, Wang T, Lai S, Lyu P, et al. Predicting melting temperature directly from protein sequences. Comput Biol Chem. 2009;33:445-50.
-
(2009)
Comput Biol Chem
, vol.33
, pp. 445-450
-
-
Ku, T.1
Lu, P.2
Chan, C.3
Wang, T.4
Lai, S.5
Lyu, P.6
-
109
-
-
84864843180
-
In silico method for modelling metabolism and gene product expression at genome scale
-
Lerman JA, Hyduke DR, Latif H, Portnoy VA, Lewis NE, Orth JD, et al. In silico method for modelling metabolism and gene product expression at genome scale. Nat Commun. 2012;3:929.
-
(2012)
Nat Commun
, vol.3
, pp. 929
-
-
Lerman, J.A.1
Hyduke, D.R.2
Latif, H.3
Portnoy, V.A.4
Lewis, N.E.5
Orth, J.D.6
-
110
-
-
84885147536
-
Antibacterial mechanisms identified through structural systems pharmacology
-
Chang RL, Xie L, Bourne PE, Palsson BO. Antibacterial mechanisms identified through structural systems pharmacology. BMC Syst Biol. 2013;7:102.
-
(2013)
BMC Syst Biol
, vol.7
, pp. 102
-
-
Chang, R.L.1
Xie, L.2
Bourne, P.E.3
Palsson, B.O.4
-
111
-
-
34548232365
-
Inference of macromolecular assemblies from crystalline state
-
Krissinel E, Henrick K. Inference of macromolecular assemblies from crystalline state. J Mol Biol. 2007;372:774-97.
-
(2007)
J Mol Biol
, vol.372
, pp. 774-797
-
-
Krissinel, E.1
Henrick, K.2
-
112
-
-
0015222647
-
The interpretation of protein structures: estimation of static accessibility
-
IN4
-
Lee B, Richards FM. The interpretation of protein structures: estimation of static accessibility. J Mol Biol. 1971;55:379-IN4.
-
(1971)
J Mol Biol
, vol.55
, pp. 379
-
-
Lee, B.1
Richards, F.M.2
-
113
-
-
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;22:2577-637.
-
(1983)
Biopolymers
, vol.22
, pp. 2577-2637
-
-
Kabsch, W.1
Sander, C.2
-
114
-
-
0030040323
-
Reduced surface: an efficient way to compute molecular surfaces
-
Sanner MF, Olson AJ, Spehner J-C. Reduced surface: an efficient way to compute molecular surfaces. Biopolymers. 1996;38:305-20.
-
(1996)
Biopolymers
, vol.38
, pp. 305-320
-
-
Sanner, M.F.1
Olson, A.J.2
Spehner, J.-C.3
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