-
1
-
-
33846036096
-
The worldwide Protein Data Bank (wwPDB): Ensuring a single, uniform archive of PDB data
-
35 DATABASE, 17142228 10.1093/nar/gkl971
-
The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB data. H Berman K Henrick H Nakamura JL Markley, Nucleic Acids Res 2007 35 Database D301 3 17142228 10.1093/nar/gkl971
-
(2007)
Nucleic Acids Res
, pp. 301-3
-
-
Berman, H.1
Henrick, K.2
Nakamura, H.3
Markley, J.L.4
-
2
-
-
38549176153
-
Remediation of the protein data bank archive
-
36 DATABASE, 18073189
-
Remediation of the protein data bank archive. K Henrick Z Feng WF Bluhm D Dimitropoulos JF Doreleijers S Dutta JL Flippen-Anderson J Ionides C Kamada E Krissinel CL Lawson JL Markley H Nakamura R Newman Y Shimizu J Swaminathan S Velankar J Ory EL Ulrich W Vranken J Westbrook R Yamashita H Yang J Young M Yousufuddin HM Berman, Nucleic acids research 2008 36 Database D426 33 18073189
-
(2008)
Nucleic Acids Research
, pp. 426-33
-
-
Henrick, K.1
Feng, Z.2
Bluhm, W.F.3
Dimitropoulos, D.4
Doreleijers, J.F.5
Dutta, S.6
Flippen-Anderson, J.L.7
Ionides, J.8
Kamada, C.9
Krissinel, E.10
Lawson, C.L.11
Markley, J.L.12
Nakamura, H.13
Newman, R.14
Shimizu, Y.15
Swaminathan, J.16
Velankar, S.17
Ory, J.18
Ulrich, E.L.19
Vranken, W.20
Westbrook, J.21
Yamashita, R.22
Yang, H.23
Young, J.24
Yousufuddin, M.25
Berman, H.M.26
more..
-
3
-
-
0021105573
-
Protein conformation and proton nuclear-magnetic-resonance chemical shifts
-
10.1111/j.1432-1033.1983.tb07848.x 6198174
-
Protein conformation and proton nuclear-magnetic-resonance chemical shifts. A Pardi G Wagner K Wüthrich, Eur J Biochem 1983 137 3 445 54 10.1111/j.1432-1033.1983.tb07848.x 6198174
-
(1983)
Eur J Biochem
, vol.137
, Issue.3
, pp. 445-54
-
-
Pardi, A.1
Wagner, G.2
Wüthrich, K.3
-
4
-
-
0026410969
-
Relationship between nuclear magnetic resonance chemical shift and protein secondary structure
-
Relationship between nuclear magnetic resonance chemical shift and protein secondary structure. DS Wishart BD Sykes FM Richards, J Mol Biol 1991 222 2 311 33 10.1016/0022-2836(91)90214-Q 1960729 (Pubitemid 121004009)
-
(1991)
Journal of Molecular Biology
, vol.222
, Issue.2
, pp. 311-333
-
-
Wishart, D.S.1
Sykes, B.D.2
Richards, F.M.3
-
5
-
-
0026597879
-
The chemical shift index: A fast and simple method for the assignment of protein secondary structure through NMR spectroscopy
-
10.1021/bi00121a010 1737021
-
The chemical shift index: a fast and simple method for the assignment of protein secondary structure through NMR spectroscopy. DS Wishart BD Sykes FM Richards, Biochemistry 1992 31 6 1647 51 10.1021/bi00121a010 1737021
-
(1992)
Biochemistry
, vol.31
, Issue.6
, pp. 1647-51
-
-
Wishart, D.S.1
Sykes, B.D.2
Richards, F.M.3
-
6
-
-
0028393784
-
The 13C chemical-shift index: A simple method for the identification of protein secondary structure using 13C chemical-shift data
-
10.1007/BF00175245 8019132
-
The 13C chemical-shift index: a simple method for the identification of protein secondary structure using 13C chemical-shift data. DS Wishart BD Sykes, J Biomol Nmr 1994 4 2 171 80 10.1007/BF00175245 8019132
-
(1994)
J Biomol Nmr
, vol.4
, Issue.2
, pp. 171-80
-
-
Wishart, D.S.1
Sykes, B.D.2
-
7
-
-
0033003335
-
Protein backbone angle restraints from searching a database for chemical shift and sequence homology
-
10.1023/A:1008392405740 10212987
-
Protein backbone angle restraints from searching a database for chemical shift and sequence homology. G Cornilescu F Delaglio A Bax, J Biomol Nmr 1999 13 3 289 302 10.1023/A:1008392405740 10212987
-
(1999)
J Biomol Nmr
, vol.13
, Issue.3
, pp. 289-302
-
-
Cornilescu, G.1
Delaglio, F.2
Bax, A.3
-
8
-
-
33747831881
-
PREDITOR: A web server for predicting protein torsion angle restraints
-
34 WEB SERVER, 16845087 10.1093/nar/gkl341
-
PREDITOR: a web server for predicting protein torsion angle restraints. MV Berjanskii S Neal DS Wishart, Nucleic acids research 2006 34 Web Server W63 9 16845087 10.1093/nar/gkl341
-
(2006)
Nucleic Acids Research
, pp. 63-9
-
-
Berjanskii, M.V.1
Neal, S.2
Wishart, D.S.3
-
9
-
-
33746256561
-
Accurate prediction of protein torsion angles using chemical shifts and sequence homology
-
10.1002/mrc.1832 16823900
-
Accurate prediction of protein torsion angles using chemical shifts and sequence homology. S Neal M Berjanskii H Zhang DS Wishart, Magnetic resonance in chemistry: MRC 2006 44 Spec No S158 67 10.1002/mrc.1832 16823900
-
(2006)
Magnetic Resonance in Chemistry: MRC
, vol.44
, Issue.SPEC NO
, pp. 158-67
-
-
Neal, S.1
Berjanskii, M.2
Zhang, H.3
Wishart, D.S.4
-
10
-
-
38549138986
-
BioMagResBank
-
36 DATABASE, 17984079
-
BioMagResBank. EL Ulrich H Akutsu JF Doreleijers Y Harano YE Ioannidis J Lin M Livny S Mading D Maziuk Z Miller E Nakatani CF Schulte DE Tolmie RK Wenger H Yao JL Markley, Nucleic Acids Res 2008 36 Database D402 8 17984079
-
(2008)
Nucleic Acids Res
, pp. 402-8
-
-
Ulrich, E.L.1
Akutsu, H.2
Doreleijers, J.F.3
Harano, Y.4
Ioannidis, Y.E.5
Lin, J.6
Livny, M.7
Mading, S.8
Maziuk, D.9
Miller, Z.10
Nakatani, E.11
Schulte, C.F.12
Tolmie, D.E.13
Wenger, R.K.14
Yao, H.15
Markley, J.L.16
-
11
-
-
34547455182
-
Protein structure determination from NMR chemical shifts
-
17535901 10.1073/pnas.0610313104
-
Protein structure determination from NMR chemical shifts. A Cavalli X Salvatella CM Dobson M Vendruscolo, Proc Natl Acad Sci USA 2007 104 23 9615 20 17535901 10.1073/pnas.0610313104
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, Issue.23
, pp. 9615-20
-
-
Cavalli, A.1
Salvatella, X.2
Dobson, C.M.3
Vendruscolo, M.4
-
12
-
-
48449095850
-
CS23D: A web server for rapid protein structure generation using NMR chemical shifts and sequence data
-
36 WEB SERVER, 18515350 10.1093/nar/gkn305
-
CS23D: a web server for rapid protein structure generation using NMR chemical shifts and sequence data. DS Wishart D Arndt M Berjanskii P Tang J Zhou G Lin, Nucleic acids research 2008 36 Web Server W496 502 18515350 10.1093/nar/gkn305
-
(2008)
Nucleic Acids Research
, pp. 496-502
-
-
Wishart, D.S.1
Arndt, D.2
Berjanskii, M.3
Tang, P.4
Zhou, J.5
Lin, G.6
-
13
-
-
42449146665
-
Consistent blind protein structure generation from NMR chemical shift data
-
18326625 10.1073/pnas.0800256105
-
Consistent blind protein structure generation from NMR chemical shift data. Y Shen O Lange F Delaglio P Rossi JM Aramini G Liu A Eletsky Y Wu KK Singarapu A Lemak A Ignatchenko CH Arrowsmith T Szyperski GT Montelione D Baker A Bax, Proc Natl Acad Sci USA 2008 105 12 4685 90 18326625 10.1073/pnas. 0800256105
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, Issue.12
, pp. 4685-90
-
-
Shen, Y.1
Lange, O.2
Delaglio, F.3
Rossi, P.4
Aramini, J.M.5
Liu, G.6
Eletsky, A.7
Wu, Y.8
Singarapu, K.K.9
Lemak, A.10
Ignatchenko, A.11
Arrowsmith, C.H.12
Szyperski, T.13
Montelione, G.T.14
Baker, D.15
Bax, A.16
-
14
-
-
34547679071
-
NMR: Prediction of protein flexibility
-
10.1038/nprot.2006.108 17406296
-
NMR: prediction of protein flexibility. M Berjanskii DS Wishart, Nature protocols 2006 1 2 683 8 10.1038/nprot.2006.108 17406296
-
(2006)
Nature Protocols
, vol.1
, Issue.2
, pp. 683-8
-
-
Berjanskii, M.1
Wishart, D.S.2
-
15
-
-
37848999781
-
Application of the random coil index to studying protein flexibility
-
10.1007/s10858-007-9208-0 17985196
-
Application of the random coil index to studying protein flexibility. MV Berjanskii DS Wishart, J Biomol Nmr 2008 40 31 48 10.1007/s10858-007-9208-0 17985196
-
(2008)
J Biomol Nmr
, vol.40
, pp. 31-48
-
-
Berjanskii, M.V.1
Wishart, D.S.2
-
16
-
-
0031302286
-
Automated 1H and 13C chemical shift prediction using the BioMagResBank
-
10.1023/A:1018373822088 9460240
-
Automated 1H and 13C chemical shift prediction using the BioMagResBank. DS Wishart MS Watson RF Boyko BD Sykes, J Biomol Nmr 1997 10 4 329 36 10.1023/A:1018373822088 9460240
-
(1997)
J Biomol Nmr
, vol.10
, Issue.4
, pp. 329-36
-
-
Wishart, D.S.1
Watson, M.S.2
Boyko, R.F.3
Sykes, B.D.4
-
17
-
-
0032174614
-
CAMRA: Chemical shift based computer aided protein NMR assignments
-
CAMRA: chemical shift based computer aided protein NMR assignments. W Gronwald L Willard T Jellard RF Boyko K Rajarathnam DS Wishart FD Sönnichsen BD Sykes, J Biomol Nmr 1998 12 3 395 405 10.1023/A:1008321629308 9835047 (Pubitemid 128511305)
-
(1998)
Journal of Biomolecular NMR
, vol.12
, Issue.3
, pp. 395-405
-
-
Gronwald, W.1
Willard, L.2
Jellard, T.3
Boyko, R.F.4
Rajarathnam, K.5
Wishart, D.S.6
Sonnichsen, F.D.7
Sykes, B.D.8
-
18
-
-
0038407231
-
Rapid and accurate calculation of protein 1H, 13C and 15N chemical shifts
-
10.1023/A:1023812930288 12766419
-
Rapid and accurate calculation of protein 1H, 13C and 15N chemical shifts. S Neal AM Nip H Zhang DS Wishart, J Biomol Nmr 2003 26 3 215 40 10.1023/A:1023812930288 12766419
-
(2003)
J Biomol Nmr
, vol.26
, Issue.3
, pp. 215-40
-
-
Neal, S.1
Nip, A.M.2
Zhang, H.3
Wishart, D.S.4
-
19
-
-
0029437665
-
Calibration of ring-current effects in proteins and nucleic acids
-
10.1007/BF00197633 8563464
-
Calibration of ring-current effects in proteins and nucleic acids. DA Case, J Biomol Nmr 1995 6 4 341 6 10.1007/BF00197633 8563464
-
(1995)
J Biomol Nmr
, vol.6
, Issue.4
, pp. 341-6
-
-
Case, D.A.1
-
20
-
-
0028394633
-
Analysis of proton chemical shifts in regular secondary structure of proteins
-
10.1007/BF00175249 8019135
-
Analysis of proton chemical shifts in regular secondary structure of proteins. K Osapay DA Case, J Biomol Nmr 1994 4 2 215 30 10.1007/BF00175249 8019135
-
(1994)
J Biomol Nmr
, vol.4
, Issue.2
, pp. 215-30
-
-
Osapay, K.1
Case, D.A.2
-
21
-
-
0001204696
-
15N chemical shifts in dipeptides: Applications to protein NMR spectroscopy
-
Ab initio studies of amide-N-15 chemical shifts in dipeptides: Applications to protein NMR spectroscopy. H Le E Oldfield, J Phys Chem-Us 1996 100 40 16423 16428 10.1021/jp9606164 (Pubitemid 126799393)
-
(1996)
Journal of Physical Chemistry
, vol.100
, Issue.40
, pp. 16423-16428
-
-
Le, H.1
Oldfield, E.2
-
22
-
-
0037114648
-
Probing multiple effects on 15N, 13C alpha, 13C beta, and 13C' chemical shifts in peptides using density functional theory
-
10.1002/bip.10276 12434429
-
Probing multiple effects on 15N, 13C alpha, 13C beta, and 13C' chemical shifts in peptides using density functional theory. XP Xu DA Case, Biopolymers 2002 65 6 408 23 10.1002/bip.10276 12434429
-
(2002)
Biopolymers
, vol.65
, Issue.6
, pp. 408-23
-
-
Xu, X.P.1
Case, D.A.2
-
23
-
-
0037094144
-
Carbon-13 NMR shielding in the twenty common amino acids: Comparisons with experimental results in proteins
-
10.1021/ja011863a 11996591
-
Carbon-13 NMR shielding in the twenty common amino acids: comparisons with experimental results in proteins. H Sun LK Sanders E Oldfield, J Am Chem Soc 2002 124 19 5486 95 10.1021/ja011863a 11996591
-
(2002)
J Am Chem Soc
, vol.124
, Issue.19
, pp. 5486-95
-
-
Sun, H.1
Sanders, L.K.2
Oldfield, E.3
-
24
-
-
41149110741
-
Factors affecting the use of 13C(alpha) chemical shifts to determine, refine, and validate protein structures
-
17975838 10.1002/prot.21726
-
Factors affecting the use of 13C(alpha) chemical shifts to determine, refine, and validate protein structures. JA Vila HA Scheraga, Proteins 2008 71 2 641 54 17975838 10.1002/prot.21726
-
(2008)
Proteins
, vol.71
, Issue.2
, pp. 641-54
-
-
Vila, J.A.1
Scheraga, H.A.2
-
25
-
-
33750165508
-
Atom-wise statistics and prediction of solvent accessibility in proteins
-
10.1016/j.bpc.2006.06.013 16860924
-
Atom-wise statistics and prediction of solvent accessibility in proteins. YH Singh MM Gromiha A Sarai S Ahmad, Biophys Chem 2006 124 2 145 54 10.1016/j.bpc.2006.06.013 16860924
-
(2006)
Biophys Chem
, vol.124
, Issue.2
, pp. 145-54
-
-
Singh, Y.H.1
Gromiha, M.M.2
Sarai, A.3
Ahmad, S.4
-
26
-
-
0030462271
-
Hydrophobic regions on protein surfaces: Definition based on hydration shell structure and a quick method for their computation
-
Hydrophobic regions on protein surfaces: definition based on hydration shell structure and a quick method for their computation. F Eisenhaber P Argos, Protein Eng 1996 9 12 1121 33 10.1093/protein/9.12.1121 9010925 (Pubitemid 27019584)
-
(1996)
Protein Engineering
, vol.9
, Issue.12
, pp. 1121-1133
-
-
Eisenhaber, F.1
Argos, P.2
-
27
-
-
10644250720
-
Protein chemical shifts arising from alpha-helices and beta-sheets depend on solvent exposure
-
15574491 10.1073/pnas.0407969101
-
Protein chemical shifts arising from alpha-helices and beta-sheets depend on solvent exposure. F Avbelj D Kocjan RL Baldwin, Proc Natl Acad Sci USA 2004 101 50 17394 7 15574491 10.1073/pnas.0407969101
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, Issue.50
, pp. 17394-7
-
-
Avbelj, F.1
Kocjan, D.2
Baldwin, R.L.3
-
28
-
-
0029207339
-
'Random coil' 1H chemical shifts obtained as a function of temperature and trifluoroethanol concentration for the peptide series GGXGG
-
10.1007/BF00227466 7881270
-
'Random coil' 1H chemical shifts obtained as a function of temperature and trifluoroethanol concentration for the peptide series GGXGG. G Merutka HJ Dyson PE Wright, J Biomol Nmr 1995 5 14 24 10.1007/BF00227466 7881270
-
(1995)
J Biomol Nmr
, vol.5
, pp. 14-24
-
-
Merutka, G.1
Dyson, H.J.2
Wright, P.E.3
-
29
-
-
0029364052
-
1H, 13C and 15N chemical shift referencing in biomolecular NMR
-
10.1007/BF00211777 8589602
-
1H, 13C and 15N chemical shift referencing in biomolecular NMR. DS Wishart CG Bigam J Yao F Abildgaard HJ Dyson E Oldfield JL Markley BD Sykes, J Biomol Nmr 1995 6 2 135 40 10.1007/BF00211777 8589602
-
(1995)
J Biomol Nmr
, vol.6
, Issue.2
, pp. 135-40
-
-
Wishart, D.S.1
Bigam, C.G.2
Yao, J.3
Abildgaard, F.4
Dyson, H.J.5
Oldfield, E.6
Markley, J.L.7
Sykes, B.D.8
-
30
-
-
0032454094
-
Protein chemical shift analysis: A practical guide
-
Protein chemical shift analysis: a practical guide. DS Wishart AM Nip, Biochem Cell Biol 1998 76 2-3 153 63 10.1139/bcb-76-2-3-153 9923684 (Pubitemid 29102000)
-
(1998)
Biochemistry and Cell Biology
, vol.76
, Issue.2-3
, pp. 153-163
-
-
Wishart, D.S.1
Nip, A.M.2
-
31
-
-
32944464105
-
An evaluation of chemical shift index-based secondary structure determination in proteins: Influence of random coil chemical shifts
-
10.1023/B:JNMR.0000048940.51331.49 15666561
-
An evaluation of chemical shift index-based secondary structure determination in proteins: influence of random coil chemical shifts. SP Mielke VV Krishnan, J Biomol NMR 2004 30 2 143 153 10.1023/B:JNMR.0000048940.51331.49 15666561
-
(2004)
J Biomol NMR
, vol.30
, Issue.2
, pp. 143-153
-
-
Mielke, S.P.1
Krishnan, V.V.2
-
32
-
-
21044449889
-
RECOORD: A recalculated coordinate database of 500+ proteins from the PDB using restraints from the BioMagResBank
-
10.1002/prot.20408 15822098
-
RECOORD: a recalculated coordinate database of 500+ proteins from the PDB using restraints from the BioMagResBank. AJ Nederveen JF Doreleijers W Vranken Z Miller CAEM Spronk SB Nabuurs P Güntert M Livny JL Markley M Nilges EL Ulrich R Kaptein AMJJ Bonvin, Proteins 2005 59 4 662 72 10.1002/prot.20408 15822098
-
(2005)
Proteins
, vol.59
, Issue.4
, pp. 662-72
-
-
Nederveen, A.J.1
Doreleijers, J.F.2
Vranken, W.3
Miller, Z.4
Caem, S.5
Nabuurs, S.B.6
Güntert, P.7
Livny, M.8
Markley, J.L.9
Nilges, M.10
Ulrich, E.L.11
Kaptein, R.12
Amjj, B.13
-
33
-
-
41149116500
-
BioMagResBank (BMRB) as a partner in the Worldwide Protein Data Bank (wwPDB): New policies affecting biomolecular NMR depositions
-
18288446 10.1007/s10858-008-9221-y
-
BioMagResBank (BMRB) as a partner in the Worldwide Protein Data Bank (wwPDB): new policies affecting biomolecular NMR depositions. JL Markley EL Ulrich HM Berman K Henrick H Nakamura H Akutsu, J Biomol Nmr 2008 40 3 153 5 18288446 10.1007/s10858-008-9221-y
-
(2008)
J Biomol Nmr
, vol.40
, Issue.3
, pp. 153-5
-
-
Markley, J.L.1
Ulrich, E.L.2
Berman, H.M.3
Henrick, K.4
Nakamura, H.5
Akutsu, H.6
-
34
-
-
18444391785
-
The CCPN project: An interim report on a data model for the NMR community
-
10.1038/nsb0602-416 12032555
-
The CCPN project: an interim report on a data model for the NMR community. R Fogh J Ionides E Ulrich W Boucher W Vranken JP Linge M Habeck W Rieping TN Bhat J Westbrook K Henrick G Gilliland H Berman J Thornton M Nilges J Markley E Laue, Nat Struct Biol 2002 9 6 416 8 10.1038/nsb0602-416 12032555
-
(2002)
Nat Struct Biol
, vol.9
, Issue.6
, pp. 416-8
-
-
Fogh, R.1
Ionides, J.2
Ulrich, E.3
Boucher, W.4
Vranken, W.5
Linge, J.P.6
Habeck, M.7
Rieping, W.8
Bhat, T.N.9
Westbrook, J.10
Henrick, K.11
Gilliland, G.12
Berman, H.13
Thornton, J.14
Nilges, M.15
Markley, J.16
Laue, E.17
-
35
-
-
19444382397
-
The CCPN data model for NMR spectroscopy: Development of a software pipeline
-
10.1002/prot.20449 15815974
-
The CCPN data model for NMR spectroscopy: development of a software pipeline. WF Vranken W Boucher TJ Stevens RH Fogh A Pajon M Llinas EL Ulrich JL Markley J Ionides ED Laue, Proteins 2005 59 4 687 96 10.1002/prot.20449 15815974
-
(2005)
Proteins
, vol.59
, Issue.4
, pp. 687-96
-
-
Vranken, W.F.1
Boucher, W.2
Stevens, T.J.3
Fogh, R.H.4
Pajon, A.5
Llinas, M.6
Ulrich, E.L.7
Markley, J.L.8
Ionides, J.9
Laue, E.D.10
-
36
-
-
35848952931
-
A global analysis of NMR distance constraints from the PDB
-
17922259 10.1007/s10858-007-9199-x
-
A global analysis of NMR distance constraints from the PDB. W Vranken, J Biomol Nmr 2007 39 303 314 17922259 10.1007/s10858-007-9199-x
-
(2007)
J Biomol Nmr
, vol.39
, pp. 303-314
-
-
Vranken, W.1
-
37
-
-
3242887525
-
STRIDE: A web server for secondary structure assignment from known atomic coordinates of proteins
-
32 WEB SERVER, 15215436 10.1093/nar/gkh429
-
STRIDE: a web server for secondary structure assignment from known atomic coordinates of proteins. M Heinig D Frishman, Nucleic acids research 2004 32 Web Server W500 2 15215436 10.1093/nar/gkh429
-
(2004)
Nucleic Acids Research
, pp. 500-2
-
-
Heinig, M.1
Frishman, D.2
-
39
-
-
18544378971
-
-
The R project for statistical computing. D Bates J Chambers P Dalgaard R Gentleman K Hornik S Iacus R Ihaka F Leisch T Lumley M Maechler D Murdoch P Murrell M Plummer B Ripley DT Lang L Tierney S Urbanek, 2007 http://www.r-project.org/
-
(2007)
The R Project for Statistical Computing
-
-
Bates, D.1
Chambers, J.2
Dalgaard, P.3
Gentleman, R.4
Hornik, K.5
Iacus, S.6
Ihaka, R.7
Leisch, F.8
Lumley, T.9
Maechler, M.10
Murdoch, D.11
Murrell, P.12
Plummer, M.13
Ripley, B.14
Lang, D.T.15
Tierney, L.16
Urbanek, S.17
|