-
1
-
-
80054042695
-
The Structural Biology Knowledgebase: a portal to protein structures, sequences, functions, and methods
-
10.1007/s10969-011-9106-2, 3123456, 21472436
-
Gabanyi MJ, Adams PD, Arnold K, Bordoli L, Carter LG, Flippen-Andersen J, Gifford L, Haas J, Kouranov A, McLaughlin WA. The Structural Biology Knowledgebase: a portal to protein structures, sequences, functions, and methods. J Struct Funct Genomics 2011, 12(2):45-54. 10.1007/s10969-011-9106-2, 3123456, 21472436.
-
(2011)
J Struct Funct Genomics
, vol.12
, Issue.2
, pp. 45-54
-
-
Gabanyi, M.J.1
Adams, P.D.2
Arnold, K.3
Bordoli, L.4
Carter, L.G.5
Flippen-Andersen, J.6
Gifford, L.7
Haas, J.8
Kouranov, A.9
McLaughlin, W.A.10
-
2
-
-
75149138919
-
Structure of YqgQ protein from Bacillus subtilis, a conserved hypothetical protein
-
2805524, 20057058
-
Lakshminarasimhan D, Eswaramoorthy S, Burley SK, Swaminathan S. Structure of YqgQ protein from Bacillus subtilis, a conserved hypothetical protein. Acta Crystallogr Sect F Struct Biol Cryst Commun 2010, 66(Pt 1):8-11. 2805524, 20057058.
-
(2010)
Acta Crystallogr Sect F Struct Biol Cryst Commun
, vol.66
, Issue.PART 1
, pp. 8-11
-
-
Lakshminarasimhan, D.1
Eswaramoorthy, S.2
Burley, S.K.3
Swaminathan, S.4
-
3
-
-
33744488293
-
The ybeY protein from Escherichia coli is a metalloprotein
-
1978141, 16511207
-
Zhan C, Fedorov EV, Shi W, Ramagopal UA, Thirumuruhan R, Manjasetty BA, Almo SC, Fiser A, Chance MR, Fedorov AA. The ybeY protein from Escherichia coli is a metalloprotein. Acta Crystallogr Sect F Struct Biol Cryst Commun 2005, 61(Pt 11):959-963. 1978141, 16511207.
-
(2005)
Acta Crystallogr Sect F Struct Biol Cryst Commun
, vol.61
, Issue.PART 11
, pp. 959-963
-
-
Zhan, C.1
Fedorov, E.V.2
Shi, W.3
Ramagopal, U.A.4
Thirumuruhan, R.5
Manjasetty, B.A.6
Almo, S.C.7
Fiser, A.8
Chance, M.R.9
Fedorov, A.A.10
-
4
-
-
12244283680
-
Modeling the percolation of annotation errors in a database of protein sequences
-
10.1093/bioinformatics/18.12.1641, 12490449
-
Gilks WR, Audit B, De Angelis D, Tsoka S, Ouzounis CA. Modeling the percolation of annotation errors in a database of protein sequences. Bioinformatics 2002, 18(12):1641-1649. 10.1093/bioinformatics/18.12.1641, 12490449.
-
(2002)
Bioinformatics
, vol.18
, Issue.12
, pp. 1641-1649
-
-
Gilks, W.R.1
Audit, B.2
De Angelis, D.3
Tsoka, S.4
Ouzounis, C.A.5
-
5
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
-
10.1093/nar/25.17.3389, 146917, 9254694
-
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997, 25(17):3389-3402. 10.1093/nar/25.17.3389, 146917, 9254694.
-
(1997)
Nucleic Acids Res
, vol.25
, Issue.17
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
6
-
-
23144463912
-
FFAS03: a server for profile--profile sequence alignments
-
Jaroszewski L, Rychlewski L, Li Z, Li W, Godzik A. FFAS03: a server for profile--profile sequence alignments. Nucleic Acids Res 2005, 33(Web Server issue):284-288.
-
(2005)
Nucleic Acids Res
, vol.33
, Issue.WEB SERVER ISSUE
, pp. 284-288
-
-
Jaroszewski, L.1
Rychlewski, L.2
Li, Z.3
Li, W.4
Godzik, A.5
-
7
-
-
33747843430
-
HHsenser: exhaustive transitive profile search using HMM-HMM comparison
-
Soding J, Remmert M, Biegert A, Lupas AN. HHsenser: exhaustive transitive profile search using HMM-HMM comparison. Nucleic Acids Res 2006, 34(Web Server issue):374-378.
-
(2006)
Nucleic Acids Res
, vol.34
, Issue.WEB SERVER ISSUE
, pp. 374-378
-
-
Soding, J.1
Remmert, M.2
Biegert, A.3
Lupas, A.N.4
-
8
-
-
74549221383
-
Annotation error in public databases: misannotation of molecular function in enzyme superfamilies
-
10.1371/journal.pcbi.1000605, 2781113, 20011109
-
Schnoes AM, Brown SD, Dodevski I, Babbitt PC. Annotation error in public databases: misannotation of molecular function in enzyme superfamilies. PLoS Comput Biol 2009, 5(12):e1000605. 10.1371/journal.pcbi.1000605, 2781113, 20011109.
-
(2009)
PLoS Comput Biol
, vol.5
, Issue.12
-
-
Schnoes, A.M.1
Brown, S.D.2
Dodevski, I.3
Babbitt, P.C.4
-
9
-
-
68049090922
-
Missing in action: enzyme functional annotations in biological databases
-
10.1038/nchembio0809-521, 19620987
-
Furnham N, Garavelli JS, Apweiler R, Thornton JM. Missing in action: enzyme functional annotations in biological databases. Nat Chem Biol 2009, 5(8):521-525. 10.1038/nchembio0809-521, 19620987.
-
(2009)
Nat Chem Biol
, vol.5
, Issue.8
, pp. 521-525
-
-
Furnham, N.1
Garavelli, J.S.2
Apweiler, R.3
Thornton, J.M.4
-
10
-
-
20444456581
-
Automatic annotation of protein function
-
Valencia A. Automatic annotation of protein function. Curr Opin Struc Biol 2005, 15(3):267-274.
-
(2005)
Curr Opin Struc Biol
, vol.15
, Issue.3
, pp. 267-274
-
-
Valencia, A.1
-
11
-
-
0036308741
-
Enzyme function less conserved than anticipated
-
10.1016/S0022-2836(02)00016-5, 12051862
-
Rost B. Enzyme function less conserved than anticipated. J Mol Biol 2002, 318(2):595-608. 10.1016/S0022-2836(02)00016-5, 12051862.
-
(2002)
J Mol Biol
, vol.318
, Issue.2
, pp. 595-608
-
-
Rost, B.1
-
12
-
-
0035815113
-
Evolution of function in protein superfamilies, from a structural perspective
-
10.1006/jmbi.2001.4513, 11286560
-
Todd AE, Orengo CA, Thornton JM. Evolution of function in protein superfamilies, from a structural perspective. J Mol Biol 2001, 307(4):1113-1143. 10.1006/jmbi.2001.4513, 11286560.
-
(2001)
J Mol Biol
, vol.307
, Issue.4
, pp. 1113-1143
-
-
Todd, A.E.1
Orengo, C.A.2
Thornton, J.M.3
-
13
-
-
0030627901
-
Protein structures sustain evolutionary drift
-
Rost B. Protein structures sustain evolutionary drift. Fold Des 1997, 2(3):S19-S24.
-
(1997)
Fold Des
, vol.2
, Issue.3
-
-
Rost, B.1
-
14
-
-
84861139534
-
FunTree: a resource for exploring the functional evolution of structurally defined enzyme superfamilies
-
Furnham N, Sillitoe I, Holliday GL, Cuff AL, Rahman SA, Laskowski RA, Orengo CA, Thornton JM. FunTree: a resource for exploring the functional evolution of structurally defined enzyme superfamilies. Nucleic Acids Res 782, (Database issue):776-782.
-
Nucleic Acids Res
, vol.782
, Issue.DATABASE ISSUE
, pp. 776-782
-
-
Furnham, N.1
Sillitoe, I.2
Holliday, G.L.3
Cuff, A.L.4
Rahman, S.A.5
Laskowski, R.A.6
Orengo, C.A.7
Thornton, J.M.8
-
15
-
-
53749083563
-
Accurate sequence-based prediction of catalytic residues
-
10.1093/bioinformatics/btn433, 18710875
-
Zhang T, Zhang H, Chen K, Shen S, Ruan J, Kurgan L. Accurate sequence-based prediction of catalytic residues. Bioinformatics 2008, 24(20):2329-2338. 10.1093/bioinformatics/btn433, 18710875.
-
(2008)
Bioinformatics
, vol.24
, Issue.20
, pp. 2329-2338
-
-
Zhang, T.1
Zhang, H.2
Chen, K.3
Shen, S.4
Ruan, J.5
Kurgan, L.6
-
16
-
-
40049091146
-
Prediction of protein functional residues from sequence by probability density estimation
-
10.1093/bioinformatics/btm626, 18174181
-
Fischer JD, Mayer CE, Soding J. Prediction of protein functional residues from sequence by probability density estimation. Bioinformatics 2008, 24(5):613-620. 10.1093/bioinformatics/btm626, 18174181.
-
(2008)
Bioinformatics
, vol.24
, Issue.5
, pp. 613-620
-
-
Fischer, J.D.1
Mayer, C.E.2
Soding, J.3
-
17
-
-
0029913807
-
An evolutionary trace method defines binding surfaces common to protein families
-
10.1006/jmbi.1996.0167, 8609628
-
Lichtarge O, Bourne HR, Cohen FE. An evolutionary trace method defines binding surfaces common to protein families. J Mol Biol 1996, 257(2):342-358. 10.1006/jmbi.1996.0167, 8609628.
-
(1996)
J Mol Biol
, vol.257
, Issue.2
, pp. 342-358
-
-
Lichtarge, O.1
Bourne, H.R.2
Cohen, F.E.3
-
18
-
-
0002218484
-
Rate4Site: an algorithmic tool for the identification of functional regions in proteins by surface mapping of evolutionary determinants within their homologues
-
10.1093/bioinformatics/18.suppl_1.S71, 12169533
-
Pupko T, Bell RE, Mayrose I, Glaser F, Ben-Tal N. Rate4Site: an algorithmic tool for the identification of functional regions in proteins by surface mapping of evolutionary determinants within their homologues. Bioinformatics 2002, 18(Suppl 1):S71-S77. 10.1093/bioinformatics/18.suppl_1.S71, 12169533.
-
(2002)
Bioinformatics
, vol.18
, Issue.SUPPL. 1
-
-
Pupko, T.1
Bell, R.E.2
Mayrose, I.3
Glaser, F.4
Ben-Tal, N.5
-
19
-
-
54949145058
-
INTREPID-INformation-theoretic TREe traversal for Protein functional site IDentification
-
10.1093/bioinformatics/btn474, 2572704, 18776193
-
Sankararaman S, Sjolander K. INTREPID-INformation-theoretic TREe traversal for Protein functional site IDentification. Bioinformatics 2008, 24(21):2445-2452. 10.1093/bioinformatics/btn474, 2572704, 18776193.
-
(2008)
Bioinformatics
, vol.24
, Issue.21
, pp. 2445-2452
-
-
Sankararaman, S.1
Sjolander, K.2
-
20
-
-
0037459071
-
Functional sites in protein families uncovered via an objective and automated graph theoretic approach
-
10.1016/S0022-2836(02)01384-0, 12581652
-
Wangikar PP, Tendulkar AV, Ramya S, Mali DN, Sarawagi S. Functional sites in protein families uncovered via an objective and automated graph theoretic approach. J Mol Biol 2003, 326(3):955-978. 10.1016/S0022-2836(02)01384-0, 12581652.
-
(2003)
J Mol Biol
, vol.326
, Issue.3
, pp. 955-978
-
-
Wangikar, P.P.1
Tendulkar, A.V.2
Ramya, S.3
Mali, D.N.4
Sarawagi, S.5
-
21
-
-
0037424601
-
A model for statistical significance of local similarities in structure
-
Stark A, Sunyaev S, Russell RB. A model for statistical significance of local similarities in structure. JMolBiol 2003, 326(5):1307.
-
(2003)
JMolBiol
, vol.326
, Issue.5
, pp. 1307
-
-
Stark, A.1
Sunyaev, S.2
Russell, R.B.3
-
22
-
-
0141850386
-
An algorithm for constraint-based structural template matching: application to 3D templates with statistical analysis
-
10.1093/bioinformatics/btg226, 12967960
-
Barker JA, Thornton JM. An algorithm for constraint-based structural template matching: application to 3D templates with statistical analysis. Bioinformatics 2003, 19(13):1644. 10.1093/bioinformatics/btg226, 12967960.
-
(2003)
Bioinformatics
, vol.19
, Issue.13
, pp. 1644
-
-
Barker, J.A.1
Thornton, J.M.2
-
23
-
-
8544221118
-
Network analysis of protein structures identifies functional residues
-
10.1016/j.jmb.2004.10.055, 15544817
-
Amitai G, Shemesh A, Sitbon E, Shklar M, Netanely D, Venger I, Pietrokovski S. Network analysis of protein structures identifies functional residues. J Mol Biol 2004, 344(4):1135-1146. 10.1016/j.jmb.2004.10.055, 15544817.
-
(2004)
J Mol Biol
, vol.344
, Issue.4
, pp. 1135-1146
-
-
Amitai, G.1
Shemesh, A.2
Sitbon, E.3
Shklar, M.4
Netanely, D.5
Venger, I.6
Pietrokovski, S.7
-
24
-
-
13044272912
-
Automated analysis of interatomic contacts in proteins
-
10.1093/bioinformatics/15.4.327, 10320401
-
Sobolev V, Sorokine A, Prilusky J, Abola EE, Edelman M. Automated analysis of interatomic contacts in proteins. Bioinformatics 1999, 15(4):327-332. 10.1093/bioinformatics/15.4.327, 10320401.
-
(1999)
Bioinformatics
, vol.15
, Issue.4
, pp. 327-332
-
-
Sobolev, V.1
Sorokine, A.2
Prilusky, J.3
Abola, E.E.4
Edelman, M.5
-
25
-
-
33947393946
-
Locating the active sites of enzymes using mechanical properties
-
10.1002/prot.21353, 17311346
-
Sacquin-Mora S, Laforet E, Lavery R. Locating the active sites of enzymes using mechanical properties. Proteins 2007, 67(2):350-359. 10.1002/prot.21353, 17311346.
-
(2007)
Proteins
, vol.67
, Issue.2
, pp. 350-359
-
-
Sacquin-Mora, S.1
Laforet, E.2
Lavery, R.3
-
26
-
-
0030447531
-
Protein clefts in molecular recognition and function
-
2143314, 8976552
-
Laskowski RA, Luscombe NM, Swindells MB, Thornton JM. Protein clefts in molecular recognition and function. Protein Sci 1996, 5(12):2438-2452. 2143314, 8976552.
-
(1996)
Protein Sci
, vol.5
, Issue.12
, pp. 2438-2452
-
-
Laskowski, R.A.1
Luscombe, N.M.2
Swindells, M.B.3
Thornton, J.M.4
-
27
-
-
0031687653
-
Anatomy of protein pockets and cavities: measurement of binding site geometry and implications for ligand design
-
10.1002/pro.5560070905, 2144175, 9761470
-
Liang J, Edelsbrunner H, Woodward C. Anatomy of protein pockets and cavities: measurement of binding site geometry and implications for ligand design. Protein Sci 1998, 7(9):1884-1897. 10.1002/pro.5560070905, 2144175, 9761470.
-
(1998)
Protein Sci
, vol.7
, Issue.9
, pp. 1884-1897
-
-
Liang, J.1
Edelsbrunner, H.2
Woodward, C.3
-
28
-
-
79959937283
-
DEPTH: a web server to compute depth and predict small-molecule binding cavities in proteins
-
Tan KP, Varadarajan R, Madhusudhan MS. DEPTH: a web server to compute depth and predict small-molecule binding cavities in proteins. Nucleic Acids Res 39(Web Server issue):242-248.
-
Nucleic Acids Res
, vol.39
, Issue.WEB SERVER ISSUE
, pp. 242-248
-
-
Tan, K.P.1
Varadarajan, R.2
Madhusudhan, M.S.3
-
29
-
-
16344365267
-
Statistical criteria for the identification of protein active sites using Theoretical Microscopic Titration Curves
-
10.1002/prot.20418, 15739204
-
Ko J, Murga LF, Andre P, Yang H, Ondrechen MJ, Williams RJ, Agunwamba A, Budil DE. Statistical criteria for the identification of protein active sites using Theoretical Microscopic Titration Curves. Proteins 2005, 59(2):183-195. 10.1002/prot.20418, 15739204.
-
(2005)
Proteins
, vol.59
, Issue.2
, pp. 183-195
-
-
Ko, J.1
Murga, L.F.2
Andre, P.3
Yang, H.4
Ondrechen, M.J.5
Williams, R.J.6
Agunwamba, A.7
Budil, D.E.8
-
30
-
-
25444527443
-
Improved prediction of critical residues for protein function based on network and phylogenetic analyses
-
Thibert B, Bredesen DE, del Rio G. Improved prediction of critical residues for protein function based on network and phylogenetic analyses. BMC Bioinforma 2005, 6:213.
-
(2005)
BMC Bioinforma
, vol.6
, pp. 213
-
-
Thibert, B.1
Bredesen, D.E.2
del Rio, G.3
-
31
-
-
60849122829
-
Detection of protein catalytic residues at high precision using local network properties
-
Slama P, Filippis I, Lappe M. Detection of protein catalytic residues at high precision using local network properties. BMC Bioinforma 2008, 9:517.
-
(2008)
BMC Bioinforma
, vol.9
, pp. 517
-
-
Slama, P.1
Filippis, I.2
Lappe, M.3
-
32
-
-
33746950964
-
Prediction of catalytic residues using Support Vector Machine with selected protein sequence and structural properties
-
Petrova NV, Wu CH. Prediction of catalytic residues using Support Vector Machine with selected protein sequence and structural properties. BMC Bioinforma 2006, 7:312.
-
(2006)
BMC Bioinforma
, vol.7
, pp. 312
-
-
Petrova, N.V.1
Wu, C.H.2
-
33
-
-
77951192988
-
Automatic prediction of catalytic residues by modeling residue structural neighborhood
-
Cilia E, Passerini A. Automatic prediction of catalytic residues by modeling residue structural neighborhood. BMC Bioinforma 2010, 11:115.
-
(2010)
BMC Bioinforma
, vol.11
, pp. 115
-
-
Cilia, E.1
Passerini, A.2
-
34
-
-
59149090849
-
Partial order optimum likelihood (POOL): maximum likelihood prediction of protein active site residues using 3D Structure and sequence properties
-
10.1371/journal.pcbi.1000266, 2612599, 19148270
-
Tong W, Wei Y, Murga LF, Ondrechen MJ, Williams RJ. Partial order optimum likelihood (POOL): maximum likelihood prediction of protein active site residues using 3D Structure and sequence properties. PLoS Comput Biol 2009, 5(1):e1000266. 10.1371/journal.pcbi.1000266, 2612599, 19148270.
-
(2009)
PLoS Comput Biol
, vol.5
, Issue.1
-
-
Tong, W.1
Wei, Y.2
Murga, L.F.3
Ondrechen, M.J.4
Williams, R.J.5
-
35
-
-
22444434743
-
Looking at enzymes from the inside out: the proximity of catalytic residues to the molecular centroid can be used for detection of active sites and enzyme-ligand interfaces
-
10.1016/j.jmb.2005.06.047, 16019028
-
Ben-Shimon A, Eisenstein M. Looking at enzymes from the inside out: the proximity of catalytic residues to the molecular centroid can be used for detection of active sites and enzyme-ligand interfaces. J Mol Biol 2005, 351(2):309-326. 10.1016/j.jmb.2005.06.047, 16019028.
-
(2005)
J Mol Biol
, vol.351
, Issue.2
, pp. 309-326
-
-
Ben-Shimon, A.1
Eisenstein, M.2
-
36
-
-
0345864027
-
The Catalytic Site Atlas: a resource of catalytic sites and residues identified in enzymes using structural data
-
10.1093/nar/gkh028, 308762, 14681376
-
Porter CT, Bartlett GJ, Thornton JM. The Catalytic Site Atlas: a resource of catalytic sites and residues identified in enzymes using structural data. Nucleic Acids Res 2004, 32:D129-D133. 10.1093/nar/gkh028, 308762, 14681376.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Porter, C.T.1
Bartlett, G.J.2
Thornton, J.M.3
-
37
-
-
34548133728
-
Predicting functionally important residues from sequence conservation
-
10.1093/bioinformatics/btm270, 17519246
-
Capra JA, Singh M. Predicting functionally important residues from sequence conservation. Bioinformatics 2007, 23(15):1875-1882. 10.1093/bioinformatics/btm270, 17519246.
-
(2007)
Bioinformatics
, vol.23
, Issue.15
, pp. 1875-1882
-
-
Capra, J.A.1
Singh, M.2
-
38
-
-
0030592845
-
Conservation of amino acids in multiple alignments: aspartic acid has unexpected conservation
-
Fiser A, Simon I, Barton GJ. Conservation of amino acids in multiple alignments: aspartic acid has unexpected conservation. FEBS Lett 1996, 397(2-3):225-229.
-
(1996)
FEBS Lett
, vol.397
, Issue.2-3
, pp. 225-229
-
-
Fiser, A.1
Simon, I.2
Barton, G.J.3
-
39
-
-
33846554792
-
Evaluation of features for catalytic residue prediction in novel folds
-
2203287, 17189479
-
Youn E, Peters B, Radivojac P, Mooney SD. Evaluation of features for catalytic residue prediction in novel folds. Protein Sci 2007, 16(2):216-226. 2203287, 17189479.
-
(2007)
Protein Sci
, vol.16
, Issue.2
, pp. 216-226
-
-
Youn, E.1
Peters, B.2
Radivojac, P.3
Mooney, S.D.4
-
40
-
-
28644444803
-
Structural characterization of proteins using residue environments
-
Mooney SD, Liang MHP, DeConde R, Altman RB. Structural characterization of proteins using residue environments. Proteins-Structure Function and Bioinformatics 2005, 61(4):741-747.
-
(2005)
Proteins-Structure Function and Bioinformatics
, vol.61
, Issue.4
, pp. 741-747
-
-
Mooney, S.D.1
Liang, M.H.P.2
DeConde, R.3
Altman, R.B.4
-
41
-
-
34347388470
-
UniRef: comprehensive and non-redundant UniProt reference clusters
-
10.1093/bioinformatics/btm098, 17379688
-
Suzek BE, Huang H, McGarvey P, Mazumder R, Wu CH. UniRef: comprehensive and non-redundant UniProt reference clusters. Bioinformatics 2007, 23(10):1282-1288. 10.1093/bioinformatics/btm098, 17379688.
-
(2007)
Bioinformatics
, vol.23
, Issue.10
, pp. 1282-1288
-
-
Suzek, B.E.1
Huang, H.2
McGarvey, P.3
Mazumder, R.4
Wu, C.H.5
-
42
-
-
68049093016
-
Enzymatic transition states and dynamic motion in barrier crossing
-
10.1038/nchembio.202, 2859820, 19620996
-
Schwartz SD, Schramm VL. Enzymatic transition states and dynamic motion in barrier crossing. Nat Chem Biol 2009, 5(8):551-558. 10.1038/nchembio.202, 2859820, 19620996.
-
(2009)
Nat Chem Biol
, vol.5
, Issue.8
, pp. 551-558
-
-
Schwartz, S.D.1
Schramm, V.L.2
-
43
-
-
0036435882
-
Analysis of catalytic residues in enzyme active sites
-
10.1016/S0022-2836(02)01036-7, 12421562
-
Bartlett GJ, Porter CT, Borkakoti N, Thornton JM. Analysis of catalytic residues in enzyme active sites. J Mol Biol 2002, 324(1):105-121. 10.1016/S0022-2836(02)01036-7, 12421562.
-
(2002)
J Mol Biol
, vol.324
, Issue.1
, pp. 105-121
-
-
Bartlett, G.J.1
Porter, C.T.2
Borkakoti, N.3
Thornton, J.M.4
-
44
-
-
0027404023
-
Convergent evolution of similar enzymatic function on different protein folds: the hexokinase, ribokinase, and galactokinase families of sugar kinases
-
2142297, 8382990
-
Bork P, Sander C, Valencia A. Convergent evolution of similar enzymatic function on different protein folds: the hexokinase, ribokinase, and galactokinase families of sugar kinases. Protein Sci 1993, 2(1):31-40. 2142297, 8382990.
-
(1993)
Protein Sci
, vol.2
, Issue.1
, pp. 31-40
-
-
Bork, P.1
Sander, C.2
Valencia, A.3
-
45
-
-
33748614305
-
Computational and theoretical methods to explore the relation between enzyme dynamics and catalysis
-
10.1021/cr0503052, 16895323
-
Antoniou D, Basner J, Nunez S, Schwartz SD. Computational and theoretical methods to explore the relation between enzyme dynamics and catalysis. Chem Rev 2006, 106(8):3170-3187. 10.1021/cr0503052, 16895323.
-
(2006)
Chem Rev
, vol.106
, Issue.8
, pp. 3170-3187
-
-
Antoniou, D.1
Basner, J.2
Nunez, S.3
Schwartz, S.D.4
-
46
-
-
0043237705
-
Triggering loops and enzyme function: identification of loops that trigger and modulate movements
-
10.1016/S0022-2836(03)00893-3, 12946353
-
Gunasekaran K, Ma B, Nussinov R. Triggering loops and enzyme function: identification of loops that trigger and modulate movements. J Mol Biol 2003, 332(1):143-159. 10.1016/S0022-2836(03)00893-3, 12946353.
-
(2003)
J Mol Biol
, vol.332
, Issue.1
, pp. 143-159
-
-
Gunasekaran, K.1
Ma, B.2
Nussinov, R.3
-
47
-
-
0033536602
-
Evolutionarily conserved pathways of energetic connectivity in protein families
-
10.1126/science.286.5438.295, 10514373
-
Lockless SW, Ranganathan R. Evolutionarily conserved pathways of energetic connectivity in protein families. Science 1999, 286(5438):295-299. 10.1126/science.286.5438.295, 10514373.
-
(1999)
Science
, vol.286
, Issue.5438
, pp. 295-299
-
-
Lockless, S.W.1
Ranganathan, R.2
-
48
-
-
0036169928
-
Tolerating some redundancy significantly speeds up clustering of large protein databases
-
10.1093/bioinformatics/18.1.77, 11836214
-
Li WZ, Jaroszewski L, Godzik A. Tolerating some redundancy significantly speeds up clustering of large protein databases. Bioinformatics 2002, 18(1):77-82. 10.1093/bioinformatics/18.1.77, 11836214.
-
(2002)
Bioinformatics
, vol.18
, Issue.1
, pp. 77-82
-
-
Li, W.Z.1
Jaroszewski, L.2
Godzik, A.3
-
49
-
-
0038589165
-
The anatomy of a large-scale hypertextual Web search engine
-
Brin S, Page L. The anatomy of a large-scale hypertextual Web search engine. Comput Networks Isdn 1998, 30(1-7):107-117.
-
(1998)
Comput Networks Isdn
, vol.30
, Issue.1-7
, pp. 107-117
-
-
Brin, S.1
Page, L.2
-
50
-
-
84874672690
-
'NACESS'
-
Department of Biochemistry and Molecuar Biology, University College London
-
Hubbard SJ, Thornton JM. 'NACESS'. Computer Program 1993, Department of Biochemistry and Molecuar Biology, University College London.
-
(1993)
Computer Program
-
-
Hubbard, S.J.1
Thornton, J.M.2
-
51
-
-
0035878724
-
Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements
-
10.1093/nar/29.14.2994, 55814, 11452024
-
Schaffer AA, Aravind L, Madden TL, Shavirin S, Spouge JL, Wolf YI, Koonin EV, Altschul SF. Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements. Nucleic Acids Res 2001, 29(14):2994. 10.1093/nar/29.14.2994, 55814, 11452024.
-
(2001)
Nucleic Acids Res
, vol.29
, Issue.14
, pp. 2994
-
-
Schaffer, A.A.1
Aravind, L.2
Madden, T.L.3
Shavirin, S.4
Spouge, J.L.5
Wolf, Y.I.6
Koonin, E.V.7
Altschul, S.F.8
-
52
-
-
33750414092
-
MMM: a sequence-to-structure alignment protocol
-
10.1093/bioinformatics/btl449, 16928737
-
Rai BK, Madrid-Aliste CJ, Fajardo JE, Fiser A. MMM: a sequence-to-structure alignment protocol. Bioinformatics 2006, 22(21):2691-2692. 10.1093/bioinformatics/btl449, 16928737.
-
(2006)
Bioinformatics
, vol.22
, Issue.21
, pp. 2691-2692
-
-
Rai, B.K.1
Madrid-Aliste, C.J.2
Fajardo, J.E.3
Fiser, A.4
-
53
-
-
77954686958
-
A comparative study of conservation and variation scores
-
Johansson F, Toh H. A comparative study of conservation and variation scores. BMC Bioinforma 2010, 11:388.
-
(2010)
BMC Bioinforma
, vol.11
, pp. 388
-
-
Johansson, F.1
Toh, H.2
-
54
-
-
33748505263
-
Incorporating background frequency improves entropy-based residue conservation measures
-
Wang K, Samudrala R. Incorporating background frequency improves entropy-based residue conservation measures. BMC Bioinforma 2006, 7:385.
-
(2006)
BMC Bioinforma
, vol.7
, pp. 385
-
-
Wang, K.1
Samudrala, R.2
-
55
-
-
0022471098
-
Learning Representations by Back-Propagating Errors
-
Rumelhart DE, Hinton GE, Williams RJ. Learning Representations by Back-Propagating Errors. Nature 1986, 323(6088):533-536.
-
(1986)
Nature
, vol.323
, Issue.6088
, pp. 533-536
-
-
Rumelhart, D.E.1
Hinton, G.E.2
Williams, R.J.3
|