-
1
-
-
0032503968
-
Hsp104, Hsp70, and Hsp40: a novel chaperone system that rescues previously aggregated proteins
-
Glover JR, Lindquist S. Hsp104, Hsp70, and Hsp40: a novel chaperone system that rescues previously aggregated proteins. Cell 1998; 94: 73-82.
-
(1998)
Cell
, vol.94
, pp. 73-82
-
-
Glover, J.R.1
Lindquist, S.2
-
2
-
-
0033214052
-
ClpB cooperates with DnaK, DnaJ, and GrpE in suppressing protein aggregation. A novel multi-chaperone system from Escherichia coli
-
Zolkiewski M. ClpB cooperates with DnaK, DnaJ, and GrpE in suppressing protein aggregation. A novel multi-chaperone system from Escherichia coli. J Biol Chem 1999; 274: 28083-28086.
-
(1999)
J Biol Chem
, vol.274
, pp. 28083-28086
-
-
Zolkiewski, M.1
-
3
-
-
0033598703
-
Sequential mechanism of solubilization and refolding of stable protein aggregates by a bichaperone network
-
Goloubinoff P, Mogk A, Zvi AP, Tomoyasu T, Bukau B. Sequential mechanism of solubilization and refolding of stable protein aggregates by a bichaperone network. Proc Natl Acad Sci USA 1999; 96: 13732-13737.
-
(1999)
Proc Natl Acad Sci USA
, vol.96
, pp. 13732-13737
-
-
Goloubinoff, P.1
Mogk, A.2
Zvi, A.P.3
Tomoyasu, T.4
Bukau, B.5
-
4
-
-
0032969563
-
AAA+: a class of chaperone-like ATPases associated with the assembly, operation, and disassembly of protein complexes
-
Neuwald AF, Aravind L, Spouge JL, Koonin EV. AAA+: a class of chaperone-like ATPases associated with the assembly, operation, and disassembly of protein complexes. Genome Res 1999; 9: 27-43.
-
(1999)
Genome Res
, vol.9
, pp. 27-43
-
-
Neuwald, A.F.1
Aravind, L.2
Spouge, J.L.3
Koonin, E.V.4
-
5
-
-
0142227208
-
The structure of ClpB: a molecular chaperone that rescues proteins from an aggregated state
-
Lee S, Sowa ME, Watanabe YH, Sigler PB, Chiu W, Yoshida M, Tsai FT. The structure of ClpB: a molecular chaperone that rescues proteins from an aggregated state. Cell 2003; 115: 229-240.
-
(2003)
Cell
, vol.115
, pp. 229-240
-
-
Lee, S.1
Sowa, M.E.2
Watanabe, Y.H.3
Sigler, P.B.4
Chiu, W.5
Yoshida, M.6
Tsai, F.T.7
-
6
-
-
0037336274
-
Crystal structure of the E. coli Hsp100 ClpB N-terminal domain
-
Li J, Sha B. Crystal structure of the E. coli Hsp100 ClpB N-terminal domain. Structure 2003; 11: 323-328.
-
(2003)
Structure
, vol.11
, pp. 323-328
-
-
Li, J.1
Sha, B.2
-
7
-
-
0037053443
-
Crystal structure of E. coli Hsp100 ClpB nucleotide-binding domain 1 (NBD1) and mechanistic studies on ClpB ATPase activity
-
Li J, Sha B. Crystal structure of E. coli Hsp100 ClpB nucleotide-binding domain 1 (NBD1) and mechanistic studies on ClpB ATPase activity. J Mol Biol 2002; 318: 1127-1137.
-
(2002)
J Mol Biol
, vol.318
, pp. 1127-1137
-
-
Li, J.1
Sha, B.2
-
8
-
-
0027136282
-
Comparative protein modelling by satisfaction of spatial restraints
-
Sali A, Blundell TL. Comparative protein modelling by satisfaction of spatial restraints. J Mol Biol 1993; 234: 779-815.
-
(1993)
J Mol Biol
, vol.234
, pp. 779-815
-
-
Sali, A.1
Blundell, T.L.2
-
9
-
-
0028051828
-
Derivation of rules for comparative protein modeling from a database of protein structure alignments
-
Sali A, Overington JP. Derivation of rules for comparative protein modeling from a database of protein structure alignments. Protein Sci 1994; 3: 1582-1596.
-
(1994)
Protein Sci
, vol.3
, pp. 1582-1596
-
-
Sali, A.1
Overington, J.P.2
-
10
-
-
0033810049
-
Modeling of loops in protein structures
-
Fiser A, Do RK, Sali A. Modeling of loops in protein structures. Protein Sci 2000; 9: 1753-1773.
-
(2000)
Protein Sci
, vol.9
, pp. 1753-1773
-
-
Fiser, A.1
Do, R.K.2
Sali, A.3
-
11
-
-
84986512474
-
Charmm-a program for macromolecular energy, minimization, and dynamics calculations
-
Brooks BR, Bruccoleri RE, Olafson BD, States DJ, Swaminathan S, Karplus M. Charmm-a program for macromolecular energy, minimization, and dynamics calculations. J Comput Chem 1983; 4: 187-217.
-
(1983)
J Comput Chem
, vol.4
, pp. 187-217
-
-
Brooks, B.R.1
Bruccoleri, R.E.2
Olafson, B.D.3
States, D.J.4
Swaminathan, S.5
Karplus, M.6
-
12
-
-
84961985307
-
Development of a generalized born model parametrization for proteins and nucleic acids
-
Dominy BN, Brooks CL. Development of a generalized born model parametrization for proteins and nucleic acids. J Phys Chem B 1999; 103: 3765-3773.
-
(1999)
J Phys Chem B
, vol.103
, pp. 3765-3773
-
-
Dominy, B.N.1
Brooks, C.L.2
-
13
-
-
1342268093
-
Nucleotide-induced switch in oligomerization of the AAA+ ATPase ClpB
-
Akoev V, Gogol EP, Barnett ME, Zolkiewski M. Nucleotide-induced switch in oligomerization of the AAA+ ATPase ClpB. Protein Sci 2004; 13: 567-574.
-
(2004)
Protein Sci
, vol.13
, pp. 567-574
-
-
Akoev, V.1
Gogol, E.P.2
Barnett, M.E.3
Zolkiewski, M.4
-
14
-
-
8844251486
-
Thermotolerance requires refolding of aggregated proteins by substrate translocation through the central pore of ClpB
-
Weibezahn J, Tessarz P, Schlieker C, Zahn R, Maglica Z, Lee S, Zentgraf H, Weber-Ban EU, Dougan DA, Tsai FT, Mogk A, Bukau B. Thermotolerance requires refolding of aggregated proteins by substrate translocation through the central pore of ClpB. Cell 2004; 119: 653-665.
-
(2004)
Cell
, vol.119
, pp. 653-665
-
-
Weibezahn, J.1
Tessarz, P.2
Schlieker, C.3
Zahn, R.4
Maglica, Z.5
Lee, S.6
Zentgraf, H.7
Weber-Ban, E.U.8
Dougan, D.A.9
Tsai, F.T.10
Mogk, A.11
Bukau, B.12
-
15
-
-
33846941900
-
Asymmetric deceleration of ClpB or Hsp104 ATPase activity unleashes protein-remodeling activity
-
Doyle SM, Shorter J, Zolkiewski M, Hoskins JR, Lindquist S, Wickner S. Asymmetric deceleration of ClpB or Hsp104 ATPase activity unleashes protein-remodeling activity. Nat Struct Mol Biol 2007; 14: 114-122.
-
(2007)
Nat Struct Mol Biol
, vol.14
, pp. 114-122
-
-
Doyle, S.M.1
Shorter, J.2
Zolkiewski, M.3
Hoskins, J.R.4
Lindquist, S.5
Wickner, S.6
-
16
-
-
27144456262
-
The amino-terminal \domain of ClpB supports binding to strongly aggregated proteins
-
Barnett ME, Nagy M, Kedzierska S, Zolkiewski M. The amino-terminal \domain of ClpB supports binding to strongly aggregated proteins. J Biol Chem 2005; 280: 34940-34945.
-
(2005)
J Biol Chem
, vol.280
, pp. 34940-34945
-
-
Barnett, M.E.1
Nagy, M.2
Kedzierska, S.3
Zolkiewski, M.4
-
17
-
-
23644449394
-
The N-terminal domain of Escherichia coli ClpB enhances chaperone function
-
Chow IT, Barnett ME, Zolkiewski M, Baneyx F. The N-terminal domain of Escherichia coli ClpB enhances chaperone function. FEBS Lett 2005; 579: 4242-4248.
-
(2005)
FEBS Lett
, vol.579
, pp. 4242-4248
-
-
Chow, I.T.1
Barnett, M.E.2
Zolkiewski, M.3
Baneyx, F.4
-
18
-
-
77952353727
-
CryoEM structure of Hsp104 and its mechanistic implication for protein disaggregation
-
Lee S, Sielaff B, Lee J, Tsai FT. CryoEM structure of Hsp104 and its mechanistic implication for protein disaggregation. Proc Natl Acad Sci USA 2010; 107: 8135-8140.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 8135-8140
-
-
Lee, S.1
Sielaff, B.2
Lee, J.3
Tsai, F.T.4
-
19
-
-
0036225109
-
Stability and interactions of the amino-terminal domain of ClpB from Escherichia coli
-
Tek V, Zolkiewski M. Stability and interactions of the amino-terminal domain of ClpB from Escherichia coli. Protein Sci 2002; 11: 1192-1198.
-
(2002)
Protein Sci
, vol.11
, pp. 1192-1198
-
-
Tek, V.1
Zolkiewski, M.2
-
21
-
-
0027170772
-
Site-directed mutagenesis of the dual translational initiation sites of the clpB gene of Escherichia coli and characterization of its gene products
-
Park SK, Kim KI, Woo KM, Seol JH, Tanaka K, Ichihara A, Ha DB, Chung CH. Site-directed mutagenesis of the dual translational initiation sites of the clpB gene of Escherichia coli and characterization of its gene products. J Biol Chem 1993; 268: 20170-20174.
-
(1993)
J Biol Chem
, vol.268
, pp. 20170-20174
-
-
Park, S.K.1
Kim, K.I.2
Woo, K.M.3
Seol, J.H.4
Tanaka, K.5
Ichihara, A.6
Ha, D.B.7
Chung, C.H.8
-
22
-
-
77949329710
-
Synergistic cooperation between two ClpB isoforms in aggregate reactivation
-
Nagy M, Guenther I, Akoyev V, Barnett ME, Zavodszky MI, Kedzierska-Mieszkowska S, Zolkiewski M. Synergistic cooperation between two ClpB isoforms in aggregate reactivation. J Mol Biol 2010; 396: 697-707.
-
(2010)
J Mol Biol
, vol.396
, pp. 697-707
-
-
Nagy, M.1
Guenther, I.2
Akoyev, V.3
Barnett, M.E.4
Zavodszky, M.I.5
Kedzierska-Mieszkowska, S.6
Zolkiewski, M.7
-
23
-
-
84859592894
-
Orientation of the amino-terminal domain of ClpB affects the disaggregation of the protein
-
Mizuno S, Nakazaki Y, Yoshida M, Watanabe YH. Orientation of the amino-terminal domain of ClpB affects the disaggregation of the protein. FEBS J 2012; 279: 1474-1484.
-
(2012)
FEBS J
, vol.279
, pp. 1474-1484
-
-
Mizuno, S.1
Nakazaki, Y.2
Yoshida, M.3
Watanabe, Y.H.4
-
25
-
-
0026747656
-
Boundary analysis in sedimentation transport experiments: a procedure for obtaining sedimentation coefficient distributions using the time derivative of the concentration profile
-
Stafford WF, III. Boundary analysis in sedimentation transport experiments: a procedure for obtaining sedimentation coefficient distributions using the time derivative of the concentration profile. Anal Biochem 1992; 203: 295-301.
-
(1992)
Anal Biochem
, vol.203
, pp. 295-301
-
-
Stafford III, W.F.1
-
26
-
-
46249092554
-
GROMACS 4: algorithms for highly efficient, load-balanced, and scalable molecular simulation
-
Hess B, Kutzner C, van der Spoel D, Lindahl E. GROMACS 4: algorithms for highly efficient, load-balanced, and scalable molecular simulation. J Chem Theor Comp 2008; 4: 435-447.
-
(2008)
J Chem Theor Comp
, vol.4
, pp. 435-447
-
-
Hess, B.1
Kutzner, C.2
van der Spoel, D.3
Lindahl, E.4
-
27
-
-
33846086933
-
Canonical sampling through velocity rescaling
-
Bussi G, Donadio D, Parrinello M. Canonical sampling through velocity rescaling. J Chem Phys 2007; 126: 014101.
-
(2007)
J Chem Phys
, vol.126
, pp. 014101
-
-
Bussi, G.1
Donadio, D.2
Parrinello, M.3
-
28
-
-
33750587438
-
Molecular-dynamics with coupling to an external bath
-
Berendsen HJC, Postma JPM, Vangunsteren WF, Dinola A, Haak JR. Molecular-dynamics with coupling to an external bath. J Chem Phys 1984; 81: 3684-3690.
-
(1984)
J Chem Phys
, vol.81
, pp. 3684-3690
-
-
Berendsen, H.J.C.1
Postma, J.P.M.2
Vangunsteren, W.F.3
Dinola, A.4
Haak, J.R.5
-
29
-
-
79952077598
-
Developing force fields from the microscopic structure of solutions: the Kirkwood-Buff approach
-
Feig M, editor. Weinheim, Germany: Wiley-VCH Verlag GmbH & Co. KGaA;
-
Weerasinghe S, Gee MB, Kang M, Bentenitis N, Smith PE. Developing force fields from the microscopic structure of solutions: the Kirkwood-Buff approach. In: Feig M, editor. Modeling solvent environments: applications to simulations of biomolecules. Weinheim, Germany: Wiley-VCH Verlag GmbH & Co. KGaA; 2010: 55-76.
-
(2010)
Modeling solvent environments: applications to simulations of biomolecules
, pp. 55-76
-
-
Weerasinghe, S.1
Gee, M.B.2
Kang, M.3
Bentenitis, N.4
Smith, P.E.5
-
30
-
-
75849134538
-
Developing force fields from the microscopic structure of solutions
-
Ploetz EA, Bentenitis N, Smith PE. Developing force fields from the microscopic structure of solutions. Fluid Phase Eq 2010; 290: 43-47.
-
(2010)
Fluid Phase Eq
, vol.290
, pp. 43-47
-
-
Ploetz, E.A.1
Bentenitis, N.2
Smith, P.E.3
-
32
-
-
84986440341
-
Settle-an analytical version of the shake and rattle algorithm for rigid water models
-
Miyamoto S, Kollman PA. Settle-an analytical version of the shake and rattle algorithm for rigid water models. J Comput Chem 1992; 13: 952-962.
-
(1992)
J Comput Chem
, vol.13
, pp. 952-962
-
-
Miyamoto, S.1
Kollman, P.A.2
-
34
-
-
0347784245
-
Quiet high-resolution computer models of a plasma
-
Hockney RW, Goel SP, Eastwood JW. Quiet high-resolution computer models of a plasma. J Comput Phys 1974; 14: 148-158.
-
(1974)
J Comput Phys
, vol.14
, pp. 148-158
-
-
Hockney, R.W.1
Goel, S.P.2
Eastwood, J.W.3
-
35
-
-
33846823909
-
Particle mesh Ewald-an N.Log(N) method for Ewald sums in large systems
-
Darden T, York D, Pedersen L. Particle mesh Ewald-an N.Log(N) method for Ewald sums in large systems. J Chem Phys 1993; 98: 10089-10092.
-
(1993)
J Chem Phys
, vol.98
, pp. 10089-10092
-
-
Darden, T.1
York, D.2
Pedersen, L.3
-
36
-
-
0031473847
-
SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling
-
Guex N, Peitsch MC. SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling. Electrophoresis 1997; 18: 2714-2723.
-
(1997)
Electrophoresis
, vol.18
, pp. 2714-2723
-
-
Guex, N.1
Peitsch, M.C.2
-
37
-
-
0036349911
-
Conserved amino acid residues within the amino-terminal domain of ClpB are essential for the chaperone activity
-
Liu Z, Tek V, Akoev V, Zolkiewski M. Conserved amino acid residues within the amino-terminal domain of ClpB are essential for the chaperone activity. J Mol Biol 2002; 321: 111-120.
-
(2002)
J Mol Biol
, vol.321
, pp. 111-120
-
-
Liu, Z.1
Tek, V.2
Akoev, V.3
Zolkiewski, M.4
-
38
-
-
0034529228
-
Structure and activity of ClpB from Escherichia coli. Role of the amino-and -carboxyl-terminal domains
-
Barnett ME, Zolkiewska A, Zolkiewski M. Structure and activity of ClpB from Escherichia coli. Role of the amino-and -carboxyl-terminal domains. J Biol Chem 2000; 275: 37565-37571.
-
(2000)
J Biol Chem
, vol.275
, pp. 37565-37571
-
-
Barnett, M.E.1
Zolkiewska, A.2
Zolkiewski, M.3
-
39
-
-
0032877493
-
Nucleotide-dependent oligomerization of ClpB from Escherichia coli
-
Zolkiewski M, Kessel M, Ginsburg A, Maurizi MR. Nucleotide-dependent oligomerization of ClpB from Escherichia coli. Protein Sci 1999; 8: 1899-1903.
-
(1999)
Protein Sci
, vol.8
, pp. 1899-1903
-
-
Zolkiewski, M.1
Kessel, M.2
Ginsburg, A.3
Maurizi, M.R.4
-
40
-
-
59949102118
-
Walker-A threonine couples nucleotide occupancy with the chaperone activity of the AAA+ ATPase ClpB
-
Nagy M, Wu HC, Liu Z, Kedzierska-Mieszkowska S, Zolkiewski M. Walker-A threonine couples nucleotide occupancy with the chaperone activity of the AAA+ ATPase ClpB. Protein Sci 2009; 18: 287-293.
-
(2009)
Protein Sci
, vol.18
, pp. 287-293
-
-
Nagy, M.1
Wu, H.C.2
Liu, Z.3
Kedzierska-Mieszkowska, S.4
Zolkiewski, M.5
-
42
-
-
41249085227
-
The flexible attachment of the N-domains to the ClpA ring body allows their use on demand
-
Cranz-Mileva S, Imkamp F, Kolygo K, Maglica Z, Kress W, Weber-Ban E. The flexible attachment of the N-domains to the ClpA ring body allows their use on demand. J Mol Biol 2008; 378: 412-424.
-
(2008)
J Mol Biol
, vol.378
, pp. 412-424
-
-
Cranz-Mileva, S.1
Imkamp, F.2
Kolygo, K.3
Maglica, Z.4
Kress, W.5
Weber-Ban, E.6
-
43
-
-
3042642040
-
Substrate recognition by the AAA+ chaperone ClpB
-
Schlieker C, Weibezahn J, Patzelt H, Tessarz P, Strub C, Zeth K, Erbse A, Schneider-Mergener J, Chin JW, Schultz PG, Bukau B, Mogk A. Substrate recognition by the AAA+ chaperone ClpB. Nat Struct Mol Biol 2004; 11: 607-615.
-
(2004)
Nat Struct Mol Biol
, vol.11
, pp. 607-615
-
-
Schlieker, C.1
Weibezahn, J.2
Patzelt, H.3
Tessarz, P.4
Strub, C.5
Zeth, K.6
Erbse, A.7
Schneider-Mergener, J.8
Chin, J.W.9
Schultz, P.G.10
Bukau, B.11
Mogk, A.12
-
44
-
-
84863396434
-
Aggregate reactivation mediated by the Hsp100 chaperones
-
Zolkiewski M, Zhang T, Nagy M. Aggregate reactivation mediated by the Hsp100 chaperones. Arch Biochem Biophys 2012; 520: 1-6.
-
(2012)
Arch Biochem Biophys
, vol.520
, pp. 1-6
-
-
Zolkiewski, M.1
Zhang, T.2
Nagy, M.3
-
45
-
-
33846231395
-
M domains couple the ClpB threading motor with the DnaK chaperone activity
-
Haslberger T, Weibezahn J, Zahn R, Lee S, Tsai FT, Bukau B, Mogk A. M domains couple the ClpB threading motor with the DnaK chaperone activity. Mol Cell 2007; 25: 247-260.
-
(2007)
Mol Cell
, vol.25
, pp. 247-260
-
-
Haslberger, T.1
Weibezahn, J.2
Zahn, R.3
Lee, S.4
Tsai, F.T.5
Bukau, B.6
Mogk, A.7
-
46
-
-
69949145963
-
DnaK-mediated association of ClpB to protein aggregates. A bichaperone network at the aggregate surface
-
Acebron SP, Martin I, del Castillo U, Moro F, Muga A. DnaK-mediated association of ClpB to protein aggregates. A bichaperone network at the aggregate surface. FEBS Lett 2009; 583: 2991-2996.
-
(2009)
FEBS Lett
, vol.583
, pp. 2991-2996
-
-
Acebron, S.P.1
Martin, I.2
del Castillo, U.3
Moro, F.4
Muga, A.5
-
47
-
-
79955563304
-
Species-specific collaboration of heat shock proteins (Hsp) 70 and 100 in thermotolerance and protein disaggregation
-
Miot M, Reidy M, Doyle SM, Hoskins JR, Johnston DM, Genest O, Vitery MC, Masison DC, Wickner S. Species-specific collaboration of heat shock proteins (Hsp) 70 and 100 in thermotolerance and protein disaggregation. Proc Natl Acad Sci USA 2011; 108: 6915-6920.
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, pp. 6915-6920
-
-
Miot, M.1
Reidy, M.2
Doyle, S.M.3
Hoskins, J.R.4
Johnston, D.M.5
Genest, O.6
Vitery, M.C.7
Masison, D.C.8
Wickner, S.9
-
48
-
-
79960189344
-
Dynamic allostery: linkers are not merely flexible
-
Ma B, Tsai CJ, Haliloglu T, Nussinov R. Dynamic allostery: linkers are not merely flexible. Structure 2011; 19: 907-917.
-
(2011)
Structure
, vol.19
, pp. 907-917
-
-
Ma, B.1
Tsai, C.J.2
Haliloglu, T.3
Nussinov, R.4
|