-
1
-
-
17844392864
-
Combining prediction of secondary structure and solvent accessibility in proteins
-
doi: 10.1002/prot.20441
-
Adamczak R, Porollo A, Meller J (2005) Combining prediction of secondary structure and solvent accessibility in proteins. Proteins 59(3):467-475. doi: 10.1002/prot.20441
-
(2005)
Proteins
, vol.59
, Issue.3
, pp. 467-475
-
-
Adamczak, R.1
Porollo, A.2
Meller, J.3
-
2
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res 25(17):3389-3402
-
(1997)
Nucleic Acids Res
, vol.25
, Issue.17
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schäffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
3
-
-
36749073976
-
A ctp-dependent archaeal riboflavin kinase forms a bridge in the evolution of cradle-loop barrels
-
doi: 10.1016/j.str.2007.09.027
-
Ammelburg M, Hartmann MD, Djuranovic S, Alva V, Koretke KK, Martin J, Sauer G, Truffault V, Zeth K, Lupas AN, Coles M (2007) A ctp-dependent archaeal riboflavin kinase forms a bridge in the evolution of cradle-loop barrels. Structure 15(12):1577-1590. doi: 10.1016/ j.str.2007.09.027
-
(2007)
Structure
, vol.15
, Issue.12
, pp. 1577-1590
-
-
Ammelburg, M.1
Hartmann, M.D.2
Djuranovic, S.3
Alva, V.4
Koretke, K.K.5
Martin, J.6
Sauer, G.7
Truffault, V.8
Zeth, K.9
Lupas, A.N.10
Coles, M.11
-
4
-
-
33747831881
-
Preditor: A web server for predicting protein torsion angle restraints
-
(Web Server issue) doi: 10.1093/nar/gkl341
-
Berjanskii MV, Neal S, Wishart DS (2006) Preditor: A web server for predicting protein torsion angle restraints. Nucleic Acids Res 34(Web Server issue):W63-W69. doi: 10.1093/nar/gkl341
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Berjanskii, M.V.1
Neal, S.2
Wishart, D.S.3
-
5
-
-
0033592545
-
The solution structure of VAT-N reveals a 'missing link' in the evolution of complex enzymes from a simple βαββ element
-
doi: 10.1016/S0960-9822(00)80017-2
-
Coles M, Diercks T, Liermann J, Groger A, Rockel B, Baumeister W, Koretke KK, Lupas A, Peters J, Kessler H (1999) The solution structure of VAT-N reveals a 'missing link' in the evolution of complex enzymes from a simple βαββ element. Curr Biol 9(20):1158-1168. doi: 10.1016/S0960-9822(00)80017-2
-
(1999)
Curr Biol
, vol.9
, Issue.20
, pp. 1158-1168
-
-
Coles, M.1
Diercks, T.2
Liermann, J.3
Groger, A.4
Rockel, B.5
Baumeister, W.6
Koretke, K.K.7
Lupas, A.8
Peters, J.9
Kessler, H.10
-
6
-
-
33749262632
-
Common evolutionary origin of swapped-hairpin and double-psi beta barrels
-
doi: 10.1016/j.str.2006.08.005
-
Coles M, Hulko M, Djuranovic S, Truffault V, Koretke KK, Martin J, Lupas AN (2006) Common evolutionary origin of swapped-hairpin and double-psi beta barrels. Structure 14(10):1489-1498. doi: 10.1016/j.str.2006.08.005
-
(2006)
Structure
, vol.14
, Issue.10
, pp. 1489-1498
-
-
Coles, M.1
Hulko, M.2
Djuranovic, S.3
Truffault, V.4
Koretke, K.K.5
Martin, J.6
Lupas, A.N.7
-
7
-
-
0033003335
-
Protein backbone angle restraints from searching a database for chemical shift and sequence homology
-
Cornilescu G, Delaglio F, Bax A (1999) Protein backbone angle restraints from searching a database for chemical shift and sequence homology. J Biomol NMR 13(3):289-302
-
(1999)
J Biomol NMR
, vol.13
, Issue.3
, pp. 289-302
-
-
Cornilescu, G.1
Delaglio, F.2
Bax, A.3
-
8
-
-
0029619259
-
Knowledge-based protein secondary structure assignment
-
doi: 10.1002/prot.340230412
-
Frishman D, Argos P (1995) Knowledge-based protein secondary structure assignment. Proteins 23(4):566-579. doi: 10.1002/prot.340230412
-
(1995)
Proteins
, vol.23
, Issue.4
, pp. 566-579
-
-
Frishman, D.1
Argos, P.2
-
9
-
-
61549095002
-
SimShiftDB; local conformational restraints derived from chemical shift similarity searches on a large synthetic database
-
doi: 10.1007/s10858-009-9301-7
-
Ginzinger SW, Coles M (2009) SimShiftDB; local conformational restraints derived from chemical shift similarity searches on a large synthetic database. J Biomol NMR 43(3):179-185. doi: 10.1007/s10858-009-9301-7
-
(2009)
J Biomol NMR
, vol.43
, Issue.3
, pp. 179-185
-
-
Ginzinger, S.W.1
Coles, M.2
-
10
-
-
32544456608
-
SimShift: Identifying structural similarities from NMR chemical shifts
-
doi: 10.1093/bioinformatics/bti805
-
Ginzinger SW, Fischer J (2006) SimShift: Identifying structural similarities from NMR chemical shifts. Bioinformatics 22(4):460-465. doi: 10.1093/bioinformatics/bti805
-
(2006)
Bioinformatics
, vol.22
, Issue.4
, pp. 460-465
-
-
Ginzinger, S.W.1
Fischer, J.2
-
11
-
-
35448950267
-
Checkshift: Automatic correction of inconsistenly referenced chemical shift data
-
doi: 10.1007/s10858-007-9191-5
-
Ginzinger SW, Gerick F, Coles M, Heun V (2007a) Checkshift: Automatic correction of inconsistenly referenced chemical shift data. J Biomol NMR. doi: 10.1007/s10858-007-9191-5
-
(2007)
J Biomol NMR
-
-
Ginzinger, S.W.1
Gerick, F.2
Coles, M.3
Heun, V.4
-
13
-
-
33646912814
-
The holo-form of the nucleotide binding domain of the KdpFABC complex from Escherichia coli reveals a new binding mode
-
doi: 10.1074/jbc.M508290200
-
Haupt M, Bramkamp M, Heller M, Coles M, Deckers-Hebestreit G, Herkenhoff-Hesselmann B, Altendorf K, Kessler H (2006) The holo-form of the nucleotide binding domain of the KdpFABC complex from Escherichia coli reveals a new binding mode. J Biol Chem 281(14):9641-9649. doi: 10.1074/jbc.M508290200
-
(2006)
J Biol Chem
, vol.281
, Issue.14
, pp. 9641-9649
-
-
Haupt, M.1
Bramkamp, M.2
Heller, M.3
Coles, M.4
Deckers-Hebestreit, G.5
Herkenhoff-Hesselmann, B.6
Altendorf, K.7
Kessler, H.8
-
14
-
-
3242887525
-
STRIDE: A web server for secondary structure assignment from known atomic coordinates of proteins
-
(Web Server issue) doi: 10.1093/nar/gkh429
-
Heinig M, Frishman D (2004) STRIDE: A web server for secondary structure assignment from known atomic coordinates of proteins. Nucleic Acids Res 32(Web Server issue):W500-W502. doi: 10.1093/nar/gkh429
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Heinig, M.1
Frishman, D.2
-
15
-
-
0842332836
-
NMR studies on the substrate-binding domains of the thermosome: Structural plasticity in the protrusion region
-
doi: 10.1016/j.jmb.2003.12.035
-
Heller M, John M, Coles M, Bosch G, Baumeister W, Kessler H (2004) NMR studies on the substrate-binding domains of the thermosome: Structural plasticity in the protrusion region. J Mol Biol 336(3):717-729. doi: 10.1016/j.jmb.2003.12.035
-
(2004)
J Mol Biol
, vol.336
, Issue.3
, pp. 717-729
-
-
Heller, M.1
John, M.2
Coles, M.3
Bosch, G.4
Baumeister, W.5
Kessler, H.6
-
16
-
-
33748183257
-
The hamp domain structure implies helix rotation in transmembrane signaling
-
doi: 10.1016/j.cell.2006.06.058
-
Hulko M, Berndt F, Gruber M, Linder JU, Truffault V, Schultz A, Martin J, Schultz JE, Lupas AN, Coles M (2006) The hamp domain structure implies helix rotation in transmembrane signaling. Cell 126(5):929-940. doi: 10.1016/j.cell.2006.06.058
-
(2006)
Cell
, vol.126
, Issue.5
, pp. 929-940
-
-
Hulko, M.1
Berndt, F.2
Gruber, M.3
Linder, J.U.4
Truffault, V.5
Schultz, A.6
Martin, J.7
Schultz, J.E.8
Lupas, A.N.9
Coles, M.10
-
17
-
-
0033578684
-
Protein secondary structure prediction based on position-specific scoring matrices
-
doi: 10.1006/jmbi.1999.3091
-
Jones DT (1999) Protein secondary structure prediction based on position-specific scoring matrices. J Mol Biol 292(2):195-202. doi: 10.1006/jmbi.1999.3091
-
(1999)
J Mol Biol
, vol.292
, Issue.2
, pp. 195-202
-
-
Jones, D.T.1
-
18
-
-
24644472965
-
Deubiquitinating function of ataxin-3: Insights from the solution structure of the Josephin domain
-
doi: 10.1073/pnas.0506344102
-
Mao Y, Senic-Matuglia F, Di Fiore PP, Polo S, Hodsdon ME, De Camilli P (2005) Deubiquitinating function of ataxin-3: Insights from the solution structure of the Josephin domain. Proc Natl Acad Sci USA 102(36):12700-12705. doi: 10.1073/pnas.0506344102
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, Issue.36
, pp. 12700-12705
-
-
Mao, Y.1
Senic-Matuglia, F.2
Di Fiore, P.P.3
Polo, S.4
Hodsdon, M.E.5
De Camilli, P.6
-
19
-
-
33746256561
-
Accurate prediction of protein torsion angles using chemical shifts and sequence homology
-
doi: 10.1002/mrc.1832
-
Neal S, Berjanskii M, Zhang H, Wishart DS (2006) Accurate prediction of protein torsion angles using chemical shifts and sequence homology. Magn Reson Chem 44:S158-S167. doi: 10.1002/mrc.1832
-
(2006)
Magn Reson Chem
, vol.44
-
-
Neal, S.1
Berjanskii, M.2
Zhang, H.3
Wishart, D.S.4
-
20
-
-
23044515498
-
The solution structure of the josephin domain of ataxin-3: Structural determinants for molecular recognition
-
doi: 10.1073/pnas.0501732102
-
Nicastro G, Menon RP, Masino L, Knowles PP, McDonald NQ, Pastore A (2005) The solution structure of the josephin domain of ataxin-3: structural determinants for molecular recognition. Proc Natl Acad Sci USA 102(30):10493-10498. doi: 10.1073/pnas.0501732102
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, Issue.30
, pp. 10493-10498
-
-
Nicastro, G.1
Menon, R.P.2
Masino, L.3
Knowles, P.P.4
McDonald, N.Q.5
Pastore, A.6
-
21
-
-
0029283884
-
Chemical shifts and three-dimensional protein structures
-
Oldfield E (1995) Chemical shifts and three-dimensional protein structures. J Biomol NMR 5(3):217-225
-
(1995)
J Biomol NMR
, vol.5
, Issue.3
, pp. 217-225
-
-
Oldfield, E.1
-
22
-
-
0036568279
-
Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles
-
Pollastri G, Przybylski D, Rost B, Baldi P (2002) Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles. Proteins 47(2):228-235
-
(2002)
Proteins
, vol.47
, Issue.2
, pp. 228-235
-
-
Pollastri, G.1
Przybylski, D.2
Rost, B.3
Baldi, P.4
-
23
-
-
3242885293
-
The predictprotein server
-
(Web Server issue) doi: 10.1093/nar/gkh377
-
Rost B, Yachdav G, Liu J (2004) The predictprotein server. Nucleic Acids Res 32(Web Server issue):W321-W326. doi: 10.1093/nar/gkh377
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Rost, B.1
Yachdav, G.2
Liu, J.3
-
24
-
-
0013293280
-
The xplor-nih nmr molecular structure determination package
-
Schwieters CD, Kuszewski JJ, Tjandra N, Marius Clore G (2003) The xplor-nih nmr molecular structure determination package. J Magn Reson 160(1):65-73
-
(2003)
J Magn Reson
, vol.160
, Issue.1
, pp. 65-73
-
-
Schwieters, C.D.1
Kuszewski, J.J.2
Tjandra, N.3
Marius Clore, G.4
-
26
-
-
68349102380
-
Improving the CheckShift algorithm
-
Diploma thesis, Lugwig-Maximilians Universität München
-
Skočibušič M (2008) Improving the CheckShift algorithm. Diploma thesis, Lugwig-Maximilians Universität München
-
(2008)
-
-
Skočibušič, M.1
-
27
-
-
23144462958
-
Linear analysis of carbon-13 chemical shift differences and its application to the detection and correction of errors in referencing and spin system identifications
-
doi: 10.1007/s10858-005-1717-0
-
Wang L, Eghbalnia HR, Bahrami A, Markley JL (2005) Linear analysis of carbon-13 chemical shift differences and its application to the detection and correction of errors in referencing and spin system identifications. J Biomol NMR 32(1):13-22. doi: 10.1007/s10858-005-1717-0
-
(2005)
J Biomol NMR
, vol.32
, Issue.1
, pp. 13-22
-
-
Wang, L.1
Eghbalnia, H.R.2
Bahrami, A.3
Markley, J.L.4
-
28
-
-
0036129107
-
Probability-based protein secondary structure identification using combined NMR chemical-shift data
-
Wang Y, Jardetzky O (2002) Probability-based protein secondary structure identification using combined NMR chemical-shift data. Protein Sci 11(4):852-861
-
(2002)
Protein Sci
, vol.11
, Issue.4
, pp. 852-861
-
-
Wang, Y.1
Jardetzky, O.2
-
29
-
-
67349267665
-
13C secondary chemical shifts and its application to nitrogen chemical shift re-referencing
-
doi: 10.1007/s10858-009-9324-0
-
13C secondary chemical shifts and its application to nitrogen chemical shift re-referencing. J Biomol NMR 44:95-99. doi: 10.1007/s10858-009-9324-0
-
(2009)
J Biomol NMR
, vol.44
, pp. 95-99
-
-
Wang, L.1
Markley, J.L.2
-
30
-
-
15844395840
-
A simple method to adjust inconsistently referenced 13C and 15N chemical shift assignments of proteins
-
doi: 10.1007/s10858-004-7441-3
-
Wang Y, Wishart DS (2005) A simple method to adjust inconsistently referenced 13C and 15N chemical shift assignments of proteins. J Biomol NMR 31(2):143-148. doi: 10.1007/s10858-004-7441-3
-
(2005)
J Biomol NMR
, vol.31
, Issue.2
, pp. 143-148
-
-
Wang, Y.1
Wishart, D.S.2
-
31
-
-
0026597879
-
The chemical shift index: A fast and simple method for the assignment of protein secondary structure through NMR spectroscopy
-
Wishart DS, Sykes BD, Richards FM (1992) The chemical shift index: A fast and simple method for the assignment of protein secondary structure through NMR spectroscopy. Biochemistry 31(6):1647-1651
-
(1992)
Biochemistry
, vol.31
, Issue.6
, pp. 1647-1651
-
-
Wishart, D.S.1
Sykes, B.D.2
Richards, F.M.3
-
32
-
-
0037354231
-
RefDB: A database of uniformly referenced protein chemical shifts
-
Zhang H, Neal S, Wishart DS (2003) RefDB: A database of uniformly referenced protein chemical shifts. J Biomol NMR 25(3):173-195
-
(2003)
J Biomol NMR
, vol.25
, Issue.3
, pp. 173-195
-
-
Zhang, H.1
Neal, S.2
Wishart, D.S.3
|