-
1
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S.F., W. Gish, W. Miller, E.W. Myers, and D.J. Lipman. 1990. Basic local alignment search tool. J. Mol. Biol. 215:403-410. http://dx.doi.org/10.1016/S0022-2836(05)80360-2
-
(1990)
J. Mol. Biol.
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
2
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
-
Altschul, S.F., T.L. Madden, A.A. Schäffer, J. Zhang, Z. Zhang, W. Miller, and D.J. Lipman. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25:3389-3402. http://dx.doi.org/10.1093/nar/25.17.3389
-
(1997)
Nucleic Acids Res.
, vol.25
, 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
-
-
0034604646
-
Nup116p associates with the Nup82p- Nsp1p-Nup159p nucleoporin complex
-
Bailer, S.M., C. Balduf, J. Katahira, A. Podtelejnikov, C. Rollenhagen, M. Mann, N. Pante, and E. Hurt. 2000. Nup116p associates with the Nup82p- Nsp1p-Nup159p nucleoporin complex. J. Biol. Chem. 275:23540-23548. http://dx.doi.org/10.1074/jbc.M001963200
-
(2000)
J. Biol. Chem.
, vol.275
, pp. 23540-23548
-
-
Bailer, S.M.1
Balduf, C.2
Katahira, J.3
Podtelejnikov, A.4
Rollenhagen, C.5
Mann, M.6
Pante, N.7
Hurt, E.8
-
4
-
-
0035158475
-
The Nsp1p carboxy-terminal domain is organized into functionally distinct coiled-coil regions required for assembly of nucleoporin subcomplexes and nucleocytoplasmic transport
-
Bailer, S.M., C. Balduf, and E. Hurt. 2001. The Nsp1p carboxy-terminal domain is organized into functionally distinct coiled-coil regions required for assembly of nucleoporin subcomplexes and nucleocytoplasmic transport. Mol. Cell. Biol. 21:7944-7955. http://dx.doi.org/10.1128/MCB.21.23.7944-7955.2001
-
(2001)
Mol. Cell. Biol.
, vol.21
, pp. 7944-7955
-
-
Bailer, S.M.1
Balduf, C.2
Hurt, E.3
-
5
-
-
38849199178
-
Dynein light chain LC8 is a dimerization hub essential in diverse protein networks
-
Barbar, E. 2008. Dynein light chain LC8 is a dimerization hub essential in diverse protein networks. Biochemistry. 47:503-508. http://dx.doi.org/10.1021/bi701995m
-
(2008)
Biochemistry.
, vol.47
, pp. 503-508
-
-
Barbar, E.1
-
6
-
-
33747729420
-
The NUG1 GTPase reveals and Nterminal RNA-binding domain that is essential for association with 60 S pre-ribosomal particles
-
Bassler, J., M. Kallas, and E. Hurt. 2006. The NUG1 GTPase reveals and Nterminal RNA-binding domain that is essential for association with 60 S pre-ribosomal particles. J. Biol. Chem. 281:24737-24744. http://dx.doi.org/10.1074/jbc.M604261200
-
(2006)
J. Biol. Chem.
, vol.281
, pp. 24737-24744
-
-
Bassler, J.1
Kallas, M.2
Hurt, E.3
-
7
-
-
8844226004
-
Nuclear pore complex structure and dynamics revealed by cryoelectron tomography
-
Beck, M., F. Förster, M. Ecke, J.M. Plitzko, F. Melchior, G. Gerisch, W. Baumeister, and O. Medalia. 2004. Nuclear pore complex structure and dynamics revealed by cryoelectron tomography. Science. 306:1387-1390. http://dx.doi.org/10.1126/science.1104808
-
(2004)
Science.
, vol.306
, pp. 1387-1390
-
-
Beck, M.1
Förster, F.2
Ecke, M.3
Plitzko, J.M.4
Melchior, F.5
Gerisch, G.6
Baumeister, W.7
Medalia, O.8
-
8
-
-
0031797358
-
Functional characterization of a Nup159p-containing nuclear pore subcomplex
-
Belgareh, N., C. Snay-Hodge, F. Pasteau, S. Dagher, C.N. Cole, and V. Doye. Functional characterization of a Nup159p-containing nuclear pore subcomplex. Mol. Biol. Cell. 9:3475-3492. http://dx.doi.org/10.1091/mbc.9.12.3475
-
Mol. Biol. Cell.
, vol.9
, pp. 3475-3492
-
-
Belgareh, N.1
Snay-Hodge, C.2
Pasteau, F.3
Dagher, S.4
Cole, C.N.5
Doye, V.6
-
9
-
-
1542374020
-
Nup358/ RanBP2 attaches to the nuclear pore complex via association with Nup88 and Nup214/CAN and plays a supporting role in CRM1-mediated nuclear protein export
-
Bernad, R., H. van der Velde, M. Fornerod, and H. Pickersgill. 2004. Nup358/ RanBP2 attaches to the nuclear pore complex via association with Nup88 and Nup214/CAN and plays a supporting role in CRM1-mediated nuclear protein export. Mol. Cell. Biol. 24:2373-2384. http://dx.doi.org/10.1128/MCB.24.6.2373-2384.2004
-
(2004)
Mol. Cell. Biol.
, vol.24
, pp. 2373-2384
-
-
Bernad, R.1
van der Velde, H.2
Fornerod, M.3
Pickersgill, H.4
-
10
-
-
77954003079
-
How sequence directs bending in tropomyosin and other twostranded α-helical coiled coils
-
Brown, J.H. 2010. How sequence directs bending in tropomyosin and other twostranded α-helical coiled coils. Protein Sci. 19:1366-1375. http://dx.doi.org/10.1002/pro.415
-
(2010)
Protein Sci.
, vol.19
, pp. 1366-1375
-
-
Brown, J.H.1
-
11
-
-
37049014272
-
Version 1.2 of the Crystallography and NMR system
-
Brunger, A.T. 2007. Version 1.2 of the Crystallography and NMR system. Nat. Protoc. 2:2728-2733. http://dx.doi.org/10.1038/nprot.2007.406
-
(2007)
Nat. Protoc.
, vol.2
, pp. 2728-2733
-
-
Brunger, A.T.1
-
12
-
-
84890101190
-
Integrated structural analysis of the human nuclear pore complex scaffold
-
Bui, K.H., A. von Appen, A.L. DiGuilio, A. Ori, L. Sparks, M.T. Mackmull, T. Bock, W. Hagen, A. Andrés-Pons, J.S. Glavy, and M. Beck. 2013. Integrated structural analysis of the human nuclear pore complex scaffold. Cell. 155:1233-1243. http://dx.doi.org/10.1016/j.cell.2013.10.055
-
(2013)
Cell.
, vol.155
, pp. 1233-1243
-
-
Bui, K.H.1
von Appen, A.2
DiGuilio, A.L.3
Ori, A.4
Sparks, L.5
Mackmull, M.T.6
Bock, T.7
Hagen, W.8
Andrés-Pons, A.9
Glavy, J.S.10
Beck, M.11
-
13
-
-
48449106792
-
The Jpred 3 secondary structure prediction server
-
Cole, C., J.D. Barber, and G.J. Barton. 2008. The Jpred 3 secondary structure prediction server. Nucleic Acids Res. 36(Suppl. 2):W197-W201.
-
(2008)
Nucleic Acids Res.
, vol.36
, pp. W197-W201
-
-
Cole, C.1
Barber, J.D.2
Barton, G.J.3
-
14
-
-
0031467708
-
A structure/function analysis of Rat7p/Nup159p, an essential nucleoporin of Saccharomyces cerevisiae
-
Del Priore, V., C. Heath, C. Snay, A. MacMillan, L. Gorsch, S. Dagher, and C. Cole. 1997. A structure/function analysis of Rat7p/Nup159p, an essential nucleoporin of Saccharomyces cerevisiae. J. Cell Sci. 110:2987-2999.
-
(1997)
J. Cell Sci.
, vol.110
, pp. 2987-2999
-
-
Del Priore, V.1
Heath, C.2
Snay, C.3
MacMillan, A.4
Gorsch, L.5
Dagher, S.6
Cole, C.7
-
15
-
-
0030696935
-
RanGTP targets p97 to RanBP2, a filamentous protein localized at the cytoplasmic periphery of the nuclear pore complex
-
Delphin, C., T. Guan, F. Melchior, and L. Gerace. 1997. RanGTP targets p97 to RanBP2, a filamentous protein localized at the cytoplasmic periphery of the nuclear pore complex. Mol. Biol. Cell. 8:2379-2390. http://dx.doi.org/10.1091/mbc.8.12.2379
-
(1997)
Mol. Biol. Cell.
, vol.8
, pp. 2379-2390
-
-
Delphin, C.1
Guan, T.2
Melchior, F.3
Gerace, L.4
-
16
-
-
36748998784
-
HADDOCK versus HADDOCK: new features and performance of HADDOCK2.0 on the CAPRI targets
-
De Vries, S.J., A.D. van Dijk, M. Krzeminski, M. van Dijk, A. Thureau, V. Hsu, T. Wassenaar, and A.M. Bonvin. 2007. HADDOCK versus HADDOCK: new features and performance of HADDOCK2.0 on the CAPRI targets. Proteins. 69:726-733. http://dx.doi.org/10.1002/prot.21723
-
(2007)
Proteins.
, vol.69
, pp. 726-733
-
-
De Vries, S.J.1
van Dijk, A.D.2
Krzeminski, M.3
van Dijk, M.4
Thureau, A.5
Hsu, V.6
Wassenaar, T.7
Bonvin, A.M.8
-
17
-
-
77955391393
-
The HADDOCK web server for data-driven biomolecular docking
-
De Vries, S.J., M. van Dijk, and A.M. Bonvin. 2010. The HADDOCK web server for data-driven biomolecular docking. Nat. Protoc. 5:883-897. http://dx.doi.org/10.1038/nprot.2010.32
-
(2010)
Nat. Protoc.
, vol.5
, pp. 883-897
-
-
De Vries, S.J.1
van Dijk, M.2
Bonvin, A.M.3
-
18
-
-
0037442962
-
HADDOCK: a protein-protein docking approach based on biochemical or biophysical information
-
Dominguez, C., R. Boelens, and A.M. Bonvin. 2003. HADDOCK: a protein-protein docking approach based on biochemical or biophysical information. J. Am. Chem. Soc. 125:1731-1737. http://dx.doi.org/10.1021/ja026939x
-
(2003)
J. Am. Chem. Soc.
, vol.125
, pp. 1731-1737
-
-
Dominguez, C.1
Boelens, R.2
Bonvin, A.M.3
-
19
-
-
0031005268
-
From nucleoporins to nuclear pore complexes
-
Doye, V., and E. Hurt. 1997. From nucleoporins to nuclear pore complexes. Curr. Opin. Cell Biol. 9:401-411. http://dx.doi.org/10.1016/S0955-0674(97)80014-2
-
(1997)
Curr. Opin. Cell Biol.
, vol.9
, pp. 401-411
-
-
Doye, V.1
Hurt, E.2
-
20
-
-
0141995069
-
The nuclear pore complex: nucleocytoplasmic transport and beyond
-
Fahrenkrog, B., and U. Aebi. 2003. The nuclear pore complex: nucleocytoplasmic transport and beyond. Nat. Rev. Mol. Cell Biol. 4:757-766. http://dx.doi.org/10.1038/nrm1230
-
(2003)
Nat. Rev. Mol. Cell Biol.
, vol.4
, pp. 757-766
-
-
Fahrenkrog, B.1
Aebi, U.2
-
21
-
-
1542390499
-
Identification of proteinprotein interaction sites from docking energy landscapes
-
Fernández-Recio, J., M. Totrov, and R. Abagyan. 2004. Identification of proteinprotein interaction sites from docking energy landscapes. J. Mol. Biol. 335:843-865. http://dx.doi.org/10.1016/j.jmb.2003.10.069
-
(2004)
J. Mol. Biol.
, vol.335
, pp. 843-865
-
-
Fernández-Recio, J.1
Totrov, M.2
Abagyan, R.3
-
22
-
-
79959931985
-
HMMER web server: interactive sequence similarity searching
-
Finn, R.D., J. Clements, and S.R. Eddy. 2011. HMMER web server: interactive sequence similarity searching. Nucleic Acids Res. 39(Suppl. 2):W29-W37. http://dx.doi.org/10.1093/nar/gkr367
-
(2011)
Nucleic Acids Res.
, vol.39
, pp. W29-W37
-
-
Finn, R.D.1
Clements, J.2
Eddy, S.R.3
-
23
-
-
0031053791
-
The human homologue of yeast CRM1 is in a dynamic subcomplex with CAN/Nup214 and a novel nuclear pore component Nup88
-
Fornerod, M., J. van Deursen, S. van Baal, A. Reynolds, D. Davis, K.G. Murti, J. Fransen, and G. Grosveld. 1997. The human homologue of yeast CRM1 is in a dynamic subcomplex with CAN/Nup214 and a novel nuclear pore component Nup88. EMBO J. 16:807-816. http://dx.doi.org/10.1093/emboj/16.4.807
-
(1997)
EMBO J.
, vol.16
, pp. 807-816
-
-
Fornerod, M.1
van Deursen, J.2
van Baal, S.3
Reynolds, A.4
Davis, D.5
Murti, K.G.6
Fransen, J.7
Grosveld, G.8
-
24
-
-
0029975088
-
SPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields
-
Frank, J., M. Radermacher, P. Penczek, J. Zhu, Y. Li, M. Ladjadj, and A. Leith. SPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields. J. Struct. Biol. 116:190-199. http://dx.doi.org/10.1006/jsbi.1996.0030
-
J. Struct. Biol.
, vol.116
, pp. 190-199
-
-
Frank, J.1
Radermacher, M.2
Penczek, P.3
Zhu, J.4
Li, Y.5
Ladjadj, M.6
Leith, A.7
-
25
-
-
33750701489
-
FG-rich repeats of nuclear pore proteins form a three-dimensional meshwork with hydrogel-like properties
-
Frey, S., R.P. Richter, and D. Görlich. 2006. FG-rich repeats of nuclear pore proteins form a three-dimensional meshwork with hydrogel-like properties. Science. 314:815-817. http://dx.doi.org/10.1126/science.1132516
-
(2006)
Science.
, vol.314
, pp. 815-817
-
-
Frey, S.1
Richter, R.P.2
Görlich, D.3
-
26
-
-
0034782444
-
HYDROMIC: prediction of hydrodynamic properties of rigid macromolecular structures obtained from electron microscopy images
-
García de la Torre, J., O. Llorca, J.L. Carrascosa, and J.M. Valpuesta. 2001. HYDROMIC: prediction of hydrodynamic properties of rigid macromolecular structures obtained from electron microscopy images. Eur. Biophys. J. 30:457-462. http://dx.doi.org/10.1007/s002490100176
-
(2001)
Eur. Biophys. J.
, vol.30
, pp. 457-462
-
-
García de la Torre, J.1
Llorca, O.2
Carrascosa, J.L.3
Valpuesta, J.M.4
-
27
-
-
0029047324
-
A conditional allele of the novel repeat-containing yeast nucleoporin RAT7/NUP159 causes both rapid cessation of mRNA export and reversible clustering of nuclear pore complexes
-
Gorsch, L.C., T.C. Dockendorff, and C.N. Cole. 1995. A conditional allele of the novel repeat-containing yeast nucleoporin RAT7/NUP159 causes both rapid cessation of mRNA export and reversible clustering of nuclear pore complexes. J. Cell Biol. 129:939-955. http://dx.doi.org/10.1083/jcb.129.4.939
-
(1995)
J. Cell Biol.
, vol.129
, pp. 939-955
-
-
Gorsch, L.C.1
Dockendorff, T.C.2
Cole, C.N.3
-
28
-
-
0029129566
-
A novel nuclear pore protein Nup82p which specifically binds to a fraction of Nsp1p
-
Grandi, P., S. Emig, C. Weise, F. Hucho, T. Pohl, and E.C. Hurt. 1995a. A novel nuclear pore protein Nup82p which specifically binds to a fraction of Nsp1p. J. Cell Biol. 130:1263-1273. http://dx.doi.org/10.1083/jcb.130.6.1263
-
(1995)
J. Cell Biol.
, vol.130
, pp. 1263-1273
-
-
Grandi, P.1
Emig, S.2
Weise, C.3
Hucho, F.4
Pohl, T.5
Hurt, E.C.6
-
29
-
-
0028893775
-
Functional interaction of Nic96p with a core nucleoporin complex consisting of Nsp1p, Nup49p and a novel protein Nup57p.
-
Grandi, P., N. Schlaich, H. Tekotte, and E.C. Hurt. 1995b. Functional interaction of Nic96p with a core nucleoporin complex consisting of Nsp1p, Nup49p and a novel protein Nup57p. EMBO J. 14:76-87.
-
(1995)
EMBO J.
, vol.14
, pp. 76-87
-
-
Grandi, P.1
Schlaich, N.2
Tekotte, H.3
Hurt, E.C.4
-
30
-
-
0027756896
-
A switch between two-, three-, and four-stranded coiled coils in GCN4 leucine zipper mutants
-
Harbury, P.B., T. Zhang, P.S. Kim, and T. Alber. 1993. A switch between two-, three-, and four-stranded coiled coils in GCN4 leucine zipper mutants. Science. 262:1401-1407. http://dx.doi.org/10.1126/science.8248779
-
(1993)
Science.
, vol.262
, pp. 1401-1407
-
-
Harbury, P.B.1
Zhang, T.2
Kim, P.S.3
Alber, T.4
-
31
-
-
0033569962
-
Rat8p/Dbp5p is a shuttling transport factor that interacts with Rat7p/Nup159p and Gle1p and suppresses the mRNA export defect of xpo1-1 cells
-
Hodge, C.A., H.V. Colot, P. Stafford, and C.N. Cole. 1999. Rat8p/Dbp5p is a shuttling transport factor that interacts with Rat7p/Nup159p and Gle1p and suppresses the mRNA export defect of xpo1-1 cells. EMBO J. 18:5778-5788. http://dx.doi.org/10.1093/emboj/18.20.5778
-
(1999)
EMBO J.
, vol.18
, pp. 5778-5788
-
-
Hodge, C.A.1
Colot, H.V.2
Stafford, P.3
Cole, C.N.4
-
32
-
-
0024293481
-
A novel nucleoskeletal-like protein located at the nuclear periphery is required for the life cycle of Saccharomyces cerevisiae
-
Hurt, E.C. 1988. A novel nucleoskeletal-like protein located at the nuclear periphery is required for the life cycle of Saccharomyces cerevisiae. EMBO J. 7:4323-4334.
-
(1988)
EMBO J.
, vol.7
, pp. 4323-4334
-
-
Hurt, E.C.1
-
33
-
-
0029157330
-
NUP82 is an essential yeast nucleoporin required for poly(A)+ RNA export
-
Hurwitz, M.E., and G. Blobel. 1995. NUP82 is an essential yeast nucleoporin required for poly(A)+ RNA export. J. Cell Biol. 130:1275-1281. http://dx.doi.org/10.1083/jcb.130.6.1275
-
(1995)
J. Cell Biol.
, vol.130
, pp. 1275-1281
-
-
Hurwitz, M.E.1
Blobel, G.2
-
34
-
-
33645941402
-
The OPLS [optimized potentials for liquid simulations] potential functions for proteins, energy minimizations for crystals of cyclic peptides and crambin
-
Jorgensen, W.L., and J. Tirado-Rives. 1988. The OPLS [optimized potentials for liquid simulations] potential functions for proteins, energy minimizations for crystals of cyclic peptides and crambin. J. Am. Chem. Soc. 110:1657-1666. http://dx.doi.org/10.1021/ja00214a001
-
(1988)
J. Am. Chem. Soc.
, vol.110
, pp. 1657-1666
-
-
Jorgensen, W.L.1
Tirado-Rives, J.2
-
35
-
-
37749007365
-
GraFix: sample preparation for single-particle electron cryomicroscopy
-
Kastner, B., N. Fischer, M.M. Golas, B. Sander, P. Dube, D. Boehringer, K. Hartmuth, J. Deckert, F. Hauer, E. Wolf, et al. 2008. GraFix: sample preparation for single-particle electron cryomicroscopy. Nat. Methods. 5:53-55. http://dx.doi.org/10.1038/nmeth1139
-
(2008)
Nat. Methods.
, vol.5
, pp. 53-55
-
-
Kastner, B.1
Fischer, N.2
Golas, M.M.3
Sander, B.4
Dube, P.5
Boehringer, D.6
Hartmuth, K.7
Deckert, J.8
Hauer, F.9
Wolf, E.10
-
36
-
-
77952068704
-
Are scoring functions in protein-protein docking ready to predict interactomes? Clues from a novel binding affinity benchmark
-
Kastritis, P.L., and A.M. Bonvin. 2010. Are scoring functions in protein-protein docking ready to predict interactomes? Clues from a novel binding affinity benchmark. J. Proteome Res. 9:2216-2225. http://dx.doi.org/10.1021/pr9009854
-
(2010)
J. Proteome Res.
, vol.9
, pp. 2216-2225
-
-
Kastritis, P.L.1
Bonvin, A.M.2
-
37
-
-
84888835711
-
Molecular origins of binding affinity: seeking the Archimedean point
-
Kastritis, P.L., and A.M. Bonvin. 2013a. Molecular origins of binding affinity: seeking the Archimedean point. Curr. Opin. Struct. Biol. 23:868-877. http://dx.doi.org/10.1016/j.sbi.2013.07.001
-
(2013)
Curr. Opin. Struct. Biol.
, vol.23
, pp. 868-877
-
-
Kastritis, P.L.1
Bonvin, A.M.2
-
38
-
-
84872225092
-
On the binding affinity of macromolecular interactions: daring to ask why proteins interact
-
Kastritis, P.L., and A.M. Bonvin. 2013b. On the binding affinity of macromolecular interactions: daring to ask why proteins interact. J. R. Soc. Interface. 10:20120835. http://dx.doi.org/10.1098/rsif.2012.0835
-
(2013)
J. R. Soc. Interface.
, vol.10
, pp. 20120835
-
-
Kastritis, P.L.1
Bonvin, A.M.2
-
39
-
-
77950347231
-
Gene regulation by nucleoporins and links to cancer
-
Köhler, A., and E. Hurt. 2010. Gene regulation by nucleoporins and links to cancer. Mol. Cell. 38:6-15. http://dx.doi.org/10.1016/j.molcel.2010.01.040
-
(2010)
Mol. Cell.
, vol.38
, pp. 6-15
-
-
Köhler, A.1
Hurt, E.2
-
40
-
-
0027979480
-
The human CAN protein, a putative oncogene product associated with myeloid leukemogenesis, is a nuclear pore complex protein that faces the cytoplasm
-
Kraemer, D., R.W. Wozniak, G. Blobel, and A. Radu. 1994. The human CAN protein, a putative oncogene product associated with myeloid leukemogenesis, is a nuclear pore complex protein that faces the cytoplasm. Proc. Natl. Acad. Sci. USA. 91:1519-1523. http://dx.doi.org/10.1073/pnas.91.4.1519
-
(1994)
Proc. Natl. Acad. Sci. USA.
, vol.91
, pp. 1519-1523
-
-
Kraemer, D.1
Wozniak, R.W.2
Blobel, G.3
Radu, A.4
-
41
-
-
0029028762
-
The essential yeast nucleoporin NUP159 is located on the cytoplasmic side of the nuclear pore complex and serves in karyopherin-mediated binding of transport substrate
-
Kraemer, D.M., C. Strambio-de-Castillia, G. Blobel, and M.P. Rout. 1995. The essential yeast nucleoporin NUP159 is located on the cytoplasmic side of the nuclear pore complex and serves in karyopherin-mediated binding of transport substrate. J. Biol. Chem. 270:19017-19021. http://dx.doi.org/10.1074/jbc.270.32.19017
-
(1995)
J. Biol. Chem.
, vol.270
, pp. 19017-19021
-
-
Kraemer, D.M.1
Strambio-de-Castillia, C.2
Blobel, G.3
Rout, M.P.4
-
42
-
-
84857966803
-
Expanding the chemical cross-linking toolbox by the use of multiple proteases and enrichment by size exclusion chromatography
-
M111.014126
-
Leitner, A., R. Reischl, T. Walzthoeni, F. Herzog, S. Bohn, F. Förster, and R. Aebersold. 2012. Expanding the chemical cross-linking toolbox by the use of multiple proteases and enrichment by size exclusion chromatography. Mol. Cell. Proteomics. 11:M111.014126. http://dx.doi.org/10.1074/mcp.M111.014126
-
(2012)
Mol. Cell. Proteomics.
, vol.11
-
-
Leitner, A.1
Reischl, R.2
Walzthoeni, T.3
Herzog, F.4
Bohn, S.5
Förster, F.6
Aebersold, R.7
-
43
-
-
35548946277
-
Nanomechanical basis of selective gating by the nuclear pore complex
-
Lim, R.Y.H., B. Fahrenkrog, J. Köser, K. Schwarz-Herion, J. Deng, and U. Aebi. Nanomechanical basis of selective gating by the nuclear pore complex. Science. 318:640-643. http://dx.doi.org/10.1126/science.1145980
-
Science.
, vol.318
, pp. 640-643
-
-
Lim, R.Y.H.1
Fahrenkrog, B.2
Köser, J.3
Schwarz-Herion, K.4
Deng, J.5
Aebi, U.6
-
44
-
-
0033377664
-
EMAN: semiautomated software for high-resolution single-particle reconstructions
-
Ludtke, S.J., P.R. Baldwin, and W. Chiu. 1999. EMAN: semiautomated software for high-resolution single-particle reconstructions. J. Struct. Biol. 128:82-97. http://dx.doi.org/10.1006/jsbi.1999.4174
-
(1999)
J. Struct. Biol.
, vol.128
, pp. 82-97
-
-
Ludtke, S.J.1
Baldwin, P.R.2
Chiu, W.3
-
45
-
-
24044434272
-
Reconstitution of Nup157 and Nup145N into the Nup84 complex
-
Lutzmann, M., R. Kunze, K. Stangl, P. Stelter, K.F. Tóth, B. Böttcher, and E. Hurt. 2005. Reconstitution of Nup157 and Nup145N into the Nup84 complex. J. Biol. Chem. 280:18442-18451. http://dx.doi.org/10.1074/jbc.M412787200
-
(2005)
J. Biol. Chem.
, vol.280
, pp. 18442-18451
-
-
Lutzmann, M.1
Kunze, R.2
Stangl, K.3
Stelter, P.4
Tóth, K.F.5
Böttcher, B.6
Hurt, E.7
-
46
-
-
77951965920
-
Skyline: an open source document editor for creating and analyzing targeted proteomics experiments
-
MacLean, B., D.M. Tomazela, N. Shulman, M. Chambers, G.L. Finney, B. Frewen, R. Kern, D.L. Tabb, D.C. Liebler, and M.J. MacCoss. 2010. Skyline: an open source document editor for creating and analyzing targeted proteomics experiments. Bioinformatics. 26:966-968. http://dx.doi.org/10.1093/bioinformatics/btq054
-
(2010)
Bioinformatics.
, vol.26
, pp. 966-968
-
-
MacLean, B.1
Tomazela, D.M.2
Shulman, N.3
Chambers, M.4
Finney, G.L.5
Frewen, B.6
Kern, R.7
Tabb, D.L.8
Liebler, D.C.9
MacCoss, M.J.10
-
47
-
-
84887515034
-
Inheritance of yeast nuclear pore complexes requires the Nsp1p subcomplex
-
Makio, T., D.L. Lapetina, and R.W. Wozniak. 2013. Inheritance of yeast nuclear pore complexes requires the Nsp1p subcomplex. J. Cell Biol. 203:187-196. http://dx.doi.org/10.1083/jcb.201304047
-
(2013)
J. Cell Biol.
, vol.203
, pp. 187-196
-
-
Makio, T.1
Lapetina, D.L.2
Wozniak, R.W.3
-
48
-
-
0345580750
-
The nuclear pore complex protein Nup88 is overexpressed in tumor cells
-
Martínez, N., A. Alonso, M.D. Moragues, J. Pontón, and J. Schneider. 1999. The nuclear pore complex protein Nup88 is overexpressed in tumor cells. Cancer Res. 59:5408-5411.
-
(1999)
Cancer Res.
, vol.59
, pp. 5408-5411
-
-
Martínez, N.1
Alonso, A.2
Moragues, M.D.3
Pontón, J.4
Schneider, J.5
-
49
-
-
25644458666
-
Automated electron microscope tomography using robust prediction of specimen movements
-
Mastronarde, D.N. 2005. Automated electron microscope tomography using robust prediction of specimen movements. J. Struct. Biol. 152:36-51. http://dx.doi.org/10.1016/j.jsb.2005.07.007
-
(2005)
J. Struct. Biol.
, vol.152
, pp. 36-51
-
-
Mastronarde, D.N.1
-
50
-
-
79954598438
-
A conserved mechanism of DEAD-box ATPase activation by nucleoporins and InsP6 in mRNA export
-
Montpetit, B., N.D. Thomsen, K.J. Helmke, M.A. Seeliger, J.M. Berger, and K. Weis. 2011. A conserved mechanism of DEAD-box ATPase activation by nucleoporins and InsP6 in mRNA export. Nature. 472:238-242. http://dx.doi.org/10.1038/nature09862
-
(2011)
Nature.
, vol.472
, pp. 238-242
-
-
Montpetit, B.1
Thomsen, N.D.2
Helmke, K.J.3
Seeliger, M.A.4
Berger, J.M.5
Weis, K.6
-
51
-
-
33846906150
-
Crystal structure of the N-terminal domain of the human protooncogene Nup214/CAN
-
Napetschnig, J., G. Blobel, and A. Hoelz. 2007. Crystal structure of the N-terminal domain of the human protooncogene Nup214/CAN. Proc. Natl. Acad. Sci. USA. 104:1783-1788. http://dx.doi.org/10.1073/pnas.0610828104
-
(2007)
Proc. Natl. Acad. Sci. USA.
, vol.104
, pp. 1783-1788
-
-
Napetschnig, J.1
Blobel, G.2
Hoelz, A.3
-
52
-
-
0025302451
-
NSP1: a yeast nuclear envelope protein localized at the nuclear pores exerts its essential function by its carboxy-terminal domain
-
Nehrbass, U., H. Kern, A. Mutvei, H. Horstmann, B. Marshallsay, and E.C. Hurt. NSP1: a yeast nuclear envelope protein localized at the nuclear pores exerts its essential function by its carboxy-terminal domain. Cell. 61:979-989. http://dx.doi.org/10.1016/0092-8674(90)90063-K
-
Cell.
, vol.61
, pp. 979-989
-
-
Nehrbass, U.1
Kern, H.2
Mutvei, A.3
Horstmann, H.4
Marshallsay, B.5
Hurt, E.C.6
-
53
-
-
18644372079
-
60S preribosome formation viewed from assembly in the nucleolus until export to the cytoplasm
-
Nissan, T.A., J. Bassler, E. Petfalski, D. Tollervey, and E. Hurt. 2002. 60S preribosome formation viewed from assembly in the nucleolus until export to the cytoplasm. EMBO J. 21:5539-5547. http://dx.doi.org/10.1093/emboj/cdf547
-
(2002)
EMBO J.
, vol.21
, pp. 5539-5547
-
-
Nissan, T.A.1
Bassler, J.2
Petfalski, E.3
Tollervey, D.4
Hurt, E.5
-
54
-
-
79956300418
-
The Dbp5 cycle at the nuclear pore complex during mRNA export II: nucleotide cycling and mRNP remodeling by Dbp5 are controlled by Nup159 and Gle1
-
Noble, K.N., E.J. Tran, A.R. Alcázar-Román, C.A. Hodge, C.N. Cole, and S.R. Wente. 2011. The Dbp5 cycle at the nuclear pore complex during mRNA export II: nucleotide cycling and mRNP remodeling by Dbp5 are controlled by Nup159 and Gle1. Genes Dev. 25:1065-1077. http://dx.doi.org/10.1101/gad.2040611
-
(2011)
Genes Dev.
, vol.25
, pp. 1065-1077
-
-
Noble, K.N.1
Tran, E.J.2
Alcázar-Román, A.R.3
Hodge, C.A.4
Cole, C.N.5
Wente, S.R.6
-
55
-
-
78651390848
-
Light chain-dependent self-association of dynein intermediate chain
-
Nyarko, A., and E. Barbar. 2011. Light chain-dependent self-association of dynein intermediate chain. J. Biol. Chem. 286:1556-1566. http://dx.doi.org/10.1074/jbc.M110.171686
-
(2011)
J. Biol. Chem.
, vol.286
, pp. 1556-1566
-
-
Nyarko, A.1
Barbar, E.2
-
56
-
-
84881228732
-
Cell typespecific nuclear pores: a case in point for context-dependent stoichiometry of molecular machines
-
Ori, A., N. Banterle, M. Iskar, A. Andrés-Pons, C. Escher, H. Khanh Bui, L. Sparks, V. Solis-Mezarino, O. Rinner, P. Bork, et al. 2013. Cell typespecific nuclear pores: a case in point for context-dependent stoichiometry of molecular machines. Mol. Syst. Biol. 9:648. http://dx.doi.org/10.1038/msb.2013.4
-
(2013)
Mol. Syst. Biol.
, vol.9
, pp. 648
-
-
Ori, A.1
Banterle, N.2
Iskar, M.3
Andrés-Pons, A.4
Escher, C.5
Khanh Bui, H.6
Sparks, L.7
Solis-Mezarino, V.8
Rinner, O.9
Bork, P.10
-
57
-
-
84900871746
-
The use of targeted proteomics to determine the stoichiometry of large macromolecular assemblies
-
Ori, A., A. Andrés-Pons, and M. Beck. 2014. The use of targeted proteomics to determine the stoichiometry of large macromolecular assemblies. Methods Cell Biol. 122:117-146. http://dx.doi.org/10.1016/B978-0-12-417160-2.00006-0
-
(2014)
Methods Cell Biol.
, vol.122
, pp. 117-146
-
-
Ori, A.1
Andrés-Pons, A.2
Beck, M.3
-
58
-
-
4444221565
-
UCSF Chimera-a visualization system for exploratory research and analysis
-
Pettersen, E.F., T.D. Goddard, C.C. Huang, G.S. Couch, D.M. Greenblatt, E.C. Meng, and T.E. Ferrin. 2004. UCSF Chimera-a visualization system for exploratory research and analysis. J. Comput. Chem. 25:1605-1612. http://dx.doi.org/10.1002/jcc.20084
-
(2004)
J. Comput. Chem.
, vol.25
, pp. 1605-1612
-
-
Pettersen, E.F.1
Goddard, T.D.2
Huang, C.C.3
Couch, G.S.4
Greenblatt, D.M.5
Meng, E.C.6
Ferrin, T.E.7
-
59
-
-
33745216899
-
Improved methods for fitting sedimentation coefficient distributions derived by time-derivative techniques
-
Philo, J.S. 2006. Improved methods for fitting sedimentation coefficient distributions derived by time-derivative techniques. Anal. Biochem. 354:238-246. http://dx.doi.org/10.1016/j.ab.2006.04.053
-
(2006)
Anal. Biochem.
, vol.354
, pp. 238-246
-
-
Philo, J.S.1
-
60
-
-
0034695924
-
The yeast nuclear pore complex: composition, architecture, and transport mechanism
-
Rout, M.P., J.D. Aitchison, A. Suprapto, K. Hjertaas, Y. Zhao, and B.T. Chait. 2000. The yeast nuclear pore complex: composition, architecture, and transport mechanism. J. Cell Biol. 148:635-651. http://dx.doi.org/10.1083/jcb.148.4.635
-
(2000)
J. Cell Biol.
, vol.148
, pp. 635-651
-
-
Rout, M.P.1
Aitchison, J.D.2
Suprapto, A.3
Hjertaas, K.4
Zhao, Y.5
Chait, B.T.6
-
61
-
-
77954065271
-
I-TASSER: a unified platform for automated protein structure and function prediction
-
Roy, A., A. Kucukural, and Y. Zhang. 2010. I-TASSER: a unified platform for automated protein structure and function prediction. Nat. Protoc. 5:725-738. http://dx.doi.org/10.1038/nprot.2010.5
-
(2010)
Nat. Protoc.
, vol.5
, pp. 725-738
-
-
Roy, A.1
Kucukural, A.2
Zhang, Y.3
-
62
-
-
0033517108
-
Dbp5, a DEAD-box protein required for mRNA export, is recruited to the cytoplasmic fibrils of nuclear pore complex via a conserved interaction with CAN/Nup159p
-
Schmitt, C., C. von Kobbe, A. Bachi, N. Panté, J.P. Rodrigues, C. Boscheron, G. Rigaut, M. Wilm, B. Séraphin, M. Carmo-Fonseca, and E. Izaurralde. Dbp5, a DEAD-box protein required for mRNA export, is recruited to the cytoplasmic fibrils of nuclear pore complex via a conserved interaction with CAN/Nup159p. EMBO J. 18:4332-4347. http://dx.doi.org/10.1093/emboj/18.15.4332
-
EMBO J.
, vol.18
, pp. 4332-4347
-
-
Schmitt, C.1
von Kobbe, C.2
Bachi, A.3
Panté, N.4
Rodrigues, J.P.5
Boscheron, C.6
Rigaut, G.7
Wilm, M.8
Séraphin, B.9
Carmo-Fonseca, M.10
Izaurralde, E.11
-
63
-
-
0026747656
-
Boundary analysis in sedimentation transport experiments: a procedure for obtaining sedimentation coefficient distributions using the time derivative of the concentration profile
-
Stafford, W.F., III. 1992. Boundary analysis in sedimentation transport experiments: a procedure for obtaining sedimentation coefficient distributions using the time derivative of the concentration profile. Anal. Biochem. 203:295-301. http://dx.doi.org/10.1016/0003-2697(92)90316-Y
-
(1992)
Anal. Biochem.
, vol.203
, pp. 295-301
-
-
Stafford, W.F.1
-
64
-
-
34347383511
-
Molecular basis for the functional interaction of dynein light chain with the nuclear-pore complex
-
Stelter, P., R. Kunze, D. Flemming, D. Höpfner, M. Diepholz, P. Philippsen, B. Böttcher, and E. Hurt. 2007. Molecular basis for the functional interaction of dynein light chain with the nuclear-pore complex. Nat. Cell Biol. 9:788-796. http://dx.doi.org/10.1038/ncb1604
-
(2007)
Nat. Cell Biol.
, vol.9
, pp. 788-796
-
-
Stelter, P.1
Kunze, R.2
Flemming, D.3
Höpfner, D.4
Diepholz, M.5
Philippsen, P.6
Böttcher, B.7
Hurt, E.8
-
65
-
-
84866285157
-
Monitoring spatiotemporal biogenesis of macromolecular assemblies by pulse-chase epitope labeling
-
Stelter, P., R. Kunze, M. Radwan, E. Thomson, K. Thierbach, M. Thoms, and E. Hurt. 2012. Monitoring spatiotemporal biogenesis of macromolecular assemblies by pulse-chase epitope labeling. Mol. Cell. 47:788-796. http://dx.doi.org/10.1016/j.molcel.2012.06.015
-
(2012)
Mol. Cell.
, vol.47
, pp. 788-796
-
-
Stelter, P.1
Kunze, R.2
Radwan, M.3
Thomson, E.4
Thierbach, K.5
Thoms, M.6
Hurt, E.7
-
66
-
-
84861529586
-
Molecular basis for the anchoring of proto-oncoprotein Nup98 to the cytoplasmic face of the nuclear pore complex
-
Stuwe, T., L.S. von Borzyskowski, A.M. Davenport, and A. Hoelz. 2012. Molecular basis for the anchoring of proto-oncoprotein Nup98 to the cytoplasmic face of the nuclear pore complex. J. Mol. Biol. 419:330-346. http://dx.doi.org/10.1016/j.jmb.2012.03.024
-
(2012)
J. Mol. Biol.
, vol.419
, pp. 330-346
-
-
Stuwe, T.1
von Borzyskowski, L.S.2
Davenport, A.M.3
Hoelz, A.4
-
67
-
-
84861324339
-
Extent of structural asymmetry in homodimeric proteins: prevalence and relevance
-
Swapna, L.S., K. Srikeerthana, and N. Srinivasan. 2012. Extent of structural asymmetry in homodimeric proteins: prevalence and relevance. PLoS ONE. 7:e36688. http://dx.doi.org/10.1371/journal.pone.0036688
-
(2012)
PLoS ONE.
, vol.7
-
-
Swapna, L.S.1
Srikeerthana, K.2
Srinivasan, N.3
-
68
-
-
84883489254
-
Protein interfaces of the conserved Nup84 complex from Chaetomium thermophilum shown by crosslinking mass spectrometry and electron microscopy
-
Thierbach, K., A. von Appen, M. Thoms, M. Beck, D. Flemming, and E. Hurt. 2013. Protein interfaces of the conserved Nup84 complex from Chaetomium thermophilum shown by crosslinking mass spectrometry and electron microscopy. Structure. 21:1672-1682. http://dx.doi.org/10.1016/j.str.2013.07.004
-
(2013)
Structure.
, vol.21
, pp. 1672-1682
-
-
Thierbach, K.1
von Appen, A.2
Thoms, M.3
Beck, M.4
Flemming, D.5
Hurt, E.6
-
69
-
-
0027245801
-
Thermodynamic characterization of the structural stability of the coiled-coil region of the bZIP transcription factor GCN4
-
Thompson, K.S., C.R. Vinson, and E. Freire. 1993. Thermodynamic characterization of the structural stability of the coiled-coil region of the bZIP transcription factor GCN4. Biochemistry. 32:5491-5496. http://dx.doi.org/10.1021/bi00072a001
-
(1993)
Biochemistry.
, vol.32
, pp. 5491-5496
-
-
Thompson, K.S.1
Vinson, C.R.2
Freire, E.3
-
70
-
-
36749016233
-
The DEAD-box protein Dbp5 controls mRNA export by triggering specific RNA:protein remodeling events
-
Tran, E.J., Y. Zhou, A.H. Corbett, and S.R. Wente. 2007. The DEAD-box protein Dbp5 controls mRNA export by triggering specific RNA:protein remodeling events. Mol. Cell. 28:850-859. http://dx.doi.org/10.1016/j.molcel.2007.09.019
-
(2007)
Mol. Cell.
, vol.28
, pp. 850-859
-
-
Tran, E.J.1
Zhou, Y.2
Corbett, A.H.3
Wente, S.R.4
-
71
-
-
84871387592
-
Reconstitution of the human cytoplasmic dynein complex
-
Trokter, M., N. Mücke, and T. Surrey. 2012. Reconstitution of the human cytoplasmic dynein complex. Proc. Natl. Acad. Sci. USA. 109:20895-20900. http://dx.doi.org/10.1073/pnas.1210573110
-
(2012)
Proc. Natl. Acad. Sci. USA.
, vol.109
, pp. 20895-20900
-
-
Trokter, M.1
Mücke, N.2
Surrey, T.3
-
72
-
-
0029903414
-
G2 arrest and impaired nucleocytoplasmic transport in mouse embryos lacking the protooncogene CAN/Nup214
-
van Deursen, J., J. Boer, L. Kasper, and G. Grosveld. 1996. G2 arrest and impaired nucleocytoplasmic transport in mouse embryos lacking the protooncogene CAN/Nup214. EMBO J. 15:5574-5583.
-
(1996)
EMBO J.
, vol.15
, pp. 5574-5583
-
-
van Deursen, J.1
Boer, J.2
Kasper, L.3
Grosveld, G.4
-
73
-
-
0029916485
-
A new generation of the IMAGIC image processing system
-
van Heel, M., G. Harauz, E.V. Orlova, R. Schmidt, and M. Schatz. 1996. A new generation of the IMAGIC image processing system. J. Struct. Biol. 116:17-24. http://dx.doi.org/10.1006/jsbi.1996.0004
-
(1996)
J. Struct. Biol.
, vol.116
, pp. 17-24
-
-
van Heel, M.1
Harauz, G.2
Orlova, E.V.3
Schmidt, R.4
Schatz, M.5
-
74
-
-
0026693436
-
Can, a putative oncogene associated with myeloid leukemogenesis, may be activated by fusion of its 3' half to different genes: characterization of the set gene
-
von Lindern, M., S. van Baal, J. Wiegant, A. Raap, A. Hagemeijer, and G. Grosveld. 1992. Can, a putative oncogene associated with myeloid leukemogenesis, may be activated by fusion of its 3' half to different genes: characterization of the set gene. Mol. Cell. Biol. 12:3346-3355.
-
(1992)
Mol. Cell. Biol.
, vol.12
, pp. 3346-3355
-
-
von Lindern, M.1
van Baal, S.2
Wiegant, J.3
Raap, A.4
Hagemeijer, A.5
Grosveld, G.6
-
75
-
-
84866118432
-
False discovery rate estimation for crosslinked peptides identified by mass spectrometry
-
Walzthoeni, T., M. Claassen, A. Leitner, F. Herzog, S. Bohn, F. Förster, M. Beck, and R. Aebersold. 2012. False discovery rate estimation for crosslinked peptides identified by mass spectrometry. Nat. Methods. 9:901-903. http://dx.doi.org/10.1038/nmeth.2103
-
(2012)
Nat. Methods.
, vol.9
, pp. 901-903
-
-
Walzthoeni, T.1
Claassen, M.2
Leitner, A.3
Herzog, F.4
Bohn, S.5
Förster, F.6
Beck, M.7
Aebersold, R.8
-
76
-
-
65449188232
-
Jalview Version 2-a multiple sequence alignment editor and analysis workbench
-
Waterhouse, A.M., J.B. Procter, D.M. Martin, M. Clamp, and G.J. Barton. 2009. Jalview Version 2-a multiple sequence alignment editor and analysis workbench. Bioinformatics. 25:1189-1191. http://dx.doi.org/10.1093/bioinformatics/btp033
-
(2009)
Bioinformatics.
, vol.25
, pp. 1189-1191
-
-
Waterhouse, A.M.1
Procter, J.B.2
Martin, D.M.3
Clamp, M.4
Barton, G.J.5
-
77
-
-
9744266768
-
The N-terminal domain of Nup159 forms a β-propeller that functions in mRNA export by tethering the helicase Dbp5 to the nuclear pore
-
Weirich, C.S., J.P. Erzberger, J.M. Berger, and K. Weis. 2004. The N-terminal domain of Nup159 forms a β-propeller that functions in mRNA export by tethering the helicase Dbp5 to the nuclear pore. Mol. Cell. 16:749-760. http://dx.doi.org/10.1016/j.molcel.2004.10.032
-
(2004)
Mol. Cell.
, vol.16
, pp. 749-760
-
-
Weirich, C.S.1
Erzberger, J.P.2
Berger, J.M.3
Weis, K.4
-
78
-
-
80053646544
-
Structural and functional analysis of an essential nucleoporin heterotrimer on the cytoplasmic face of the nuclear pore complex
-
Yoshida, K., H.-S. Seo, E.W. Debler, G. Blobel, and A. Hoelz. 2011. Structural and functional analysis of an essential nucleoporin heterotrimer on the cytoplasmic face of the nuclear pore complex. Proc. Natl. Acad. Sci. USA. 108:16571-16576. http://dx.doi.org/10.1073/pnas.1112846108
-
(2011)
Proc. Natl. Acad. Sci. USA.
, vol.108
, pp. 16571-16576
-
-
Yoshida, K.1
Seo, H.-S.2
Debler, E.W.3
Blobel, G.4
Hoelz, A.5
-
79
-
-
39449115394
-
I-TASSER server for protein 3D structure prediction
-
Zhang, Y. 2008. I-TASSER server for protein 3D structure prediction. BMC Bioinformatics. 9:40. http://dx.doi.org/10.1186/1471-2105-9-40
-
(2008)
BMC Bioinformatics.
, vol.9
, pp. 40
-
-
Zhang, Y.1
|