-
1
-
-
77951023118
-
Toward a unified nomenclature for mammalian ADP-ribosyltransferases
-
Hottiger MO, Hassa PO, Luscher B, Schuler H, Koch-Nolte F (2010) Toward a unified nomenclature for mammalian ADP-ribosyltransferases. Trends Biochem Sci 35:208–219.
-
(2010)
Trends Biochem Sci
, vol.35
, pp. 208-219
-
-
Hottiger, M.O.1
Hassa, P.O.2
Luscher, B.3
Schuler, H.4
Koch-Nolte, F.5
-
2
-
-
84880333185
-
The recognition and removal of cellular poly(ADP-ribose) signals
-
Barkauskaite E, Jankevicius G, Ladurner AG, Ahel I, Timinszky G (2013) The recognition and removal of cellular poly(ADP-ribose) signals. FEBS J 280:3491–3507.
-
(2013)
FEBS J
, vol.280
, pp. 3491-3507
-
-
Barkauskaite, E.1
Jankevicius, G.2
Ladurner, A.G.3
Ahel, I.4
Timinszky, G.5
-
4
-
-
41949129135
-
Acetylation-dependent ADP-ribosylation by Trypanosoma brucei Sir2
-
Kowieski TM, Lee S, Denu JM (2008) Acetylation-dependent ADP-ribosylation by Trypanosoma brucei Sir2. J Biol Chem 283:5317–5326.
-
(2008)
J Biol Chem
, vol.283
, pp. 5317-5326
-
-
Kowieski, T.M.1
Lee, S.2
Denu, J.M.3
-
5
-
-
84937519320
-
Identification of a class of protein ADP-ribosylating sirtuins in microbial pathogens
-
Rack JG, Morra R, Barkauskaite E, Kraehenbuehl R, Ariza A, Qu Y, Ortmayer M, Leidecker O, Cameron DR, Matic I, Peleg AY, Leys D, Traven A, Ahel I (2015) Identification of a class of protein ADP-ribosylating sirtuins in microbial pathogens. Mol Cell 59:309–320.
-
(2015)
Mol Cell
, vol.59
, pp. 309-320
-
-
Rack, J.G.1
Morra, R.2
Barkauskaite, E.3
Kraehenbuehl, R.4
Ariza, A.5
Qu, Y.6
Ortmayer, M.7
Leidecker, O.8
Cameron, D.R.9
Matic, I.10
Peleg, A.Y.11
Leys, D.12
Traven, A.13
Ahel, I.14
-
6
-
-
0014429772
-
Diphtheria toxin-dependent adenosine diphosphate ribosylation of aminoacyl transferase II and inhibition of protein synthesis
-
Honjo T, Nishizuka Y, Hayaishi O (1968) Diphtheria toxin-dependent adenosine diphosphate ribosylation of aminoacyl transferase II and inhibition of protein synthesis. J Biol Chem 243:3553–3555.
-
(1968)
J Biol Chem
, vol.243
, pp. 3553-3555
-
-
Honjo, T.1
Nishizuka, Y.2
Hayaishi, O.3
-
7
-
-
0015217337
-
Structure and activity of diphtheria toxin. I. Thiol-dependent dissociation of a fraction of toxin into enzymically active and inactive fragments
-
Collier RJ, Kandel J (1971) Structure and activity of diphtheria toxin. I. Thiol-dependent dissociation of a fraction of toxin into enzymically active and inactive fragments. J Biol Chem 246:1496–1503.
-
(1971)
J Biol Chem
, vol.246
, pp. 1496-1503
-
-
Collier, R.J.1
Kandel, J.2
-
8
-
-
0032876380
-
Evolution and mechanism from structures of an ADP-ribosylating toxin and NAD complex
-
Han S, Craig JA, Putnam CD, Carozzi NB, Tainer JA (1999) Evolution and mechanism from structures of an ADP-ribosylating toxin and NAD complex. Nat Struct Biol 6:932–936.
-
(1999)
Nat Struct Biol
, vol.6
, pp. 932-936
-
-
Han, S.1
Craig, J.A.2
Putnam, C.D.3
Carozzi, N.B.4
Tainer, J.A.5
-
9
-
-
33749387471
-
A family of killer toxins. Exploring the mechanism of ADP-ribosylating toxins
-
Holbourn KP, Shone CC, Acharya KR (2006) A family of killer toxins. Exploring the mechanism of ADP-ribosylating toxins. FEBS J 273:4579–4593.
-
(2006)
FEBS J
, vol.273
, pp. 4579-4593
-
-
Holbourn, K.P.1
Shone, C.C.2
Acharya, K.R.3
-
10
-
-
84906320189
-
Novel bacterial ADP-ribosylating toxins: structure and function
-
Simon NC, Aktories K, Barbieri JT (2014) Novel bacterial ADP-ribosylating toxins: structure and function. Nat Rev Microbiol 12:599–611.
-
(2014)
Nat Rev Microbiol
, vol.12
, pp. 599-611
-
-
Simon, N.C.1
Aktories, K.2
Barbieri, J.T.3
-
11
-
-
84862758175
-
New insights into the molecular and cellular functions of poly(ADP-ribose) and PARPs
-
Gibson BA, Kraus WL (2012) New insights into the molecular and cellular functions of poly(ADP-ribose) and PARPs. Nat Rev Mol Cell Biol 13:411–424.
-
(2012)
Nat Rev Mol Cell Biol
, vol.13
, pp. 411-424
-
-
Gibson, B.A.1
Kraus, W.L.2
-
12
-
-
84937578418
-
Structures and mechanisms of enzymes employed in the synthesis and degradation of PARP-dependent protein ADP-ribosylation
-
Barkauskaite E, Jankevicius G, Ahel I (2015) Structures and mechanisms of enzymes employed in the synthesis and degradation of PARP-dependent protein ADP-ribosylation. Mol Cell 58:935–946.
-
(2015)
Mol Cell
, vol.58
, pp. 935-946
-
-
Barkauskaite, E.1
Jankevicius, G.2
Ahel, I.3
-
13
-
-
84860806404
-
Structural basis for DNA damage-dependent poly(ADP-ribosyl)ation by human PARP-1
-
Langelier MF, Planck JL, Roy S, Pascal JM (2012) Structural basis for DNA damage-dependent poly(ADP-ribosyl)ation by human PARP-1. Science 336:728–732.
-
(2012)
Science
, vol.336
, pp. 728-732
-
-
Langelier, M.F.1
Planck, J.L.2
Roy, S.3
Pascal, J.M.4
-
14
-
-
84938198958
-
The rise and fall of poly(ADP-ribose): an enzymatic perspective
-
Pascal JM, Ellenberger T (2015) The rise and fall of poly(ADP-ribose): an enzymatic perspective. DNA Repair 32:10–16.
-
(2015)
DNA Repair
, vol.32
, pp. 10-16
-
-
Pascal, J.M.1
Ellenberger, T.2
-
15
-
-
84874456032
-
Recognition of mono-ADP-ribosylated ARTD10 substrates by ARTD8 macrodomains
-
Forst AH, Karlberg T, Herzog N, Thorsell AG, Gross A, Feijs KL, Verheugd P, Kursula P, Nijmeijer B, Kremmer E, Kleine H, Ladurner AG, Schuler H, Luscher B (2013) Recognition of mono-ADP-ribosylated ARTD10 substrates by ARTD8 macrodomains. Structure 21:462–475.
-
(2013)
Structure
, vol.21
, pp. 462-475
-
-
Forst, A.H.1
Karlberg, T.2
Herzog, N.3
Thorsell, A.G.4
Gross, A.5
Feijs, K.L.6
Verheugd, P.7
Kursula, P.8
Nijmeijer, B.9
Kremmer, E.10
Kleine, H.11
Ladurner, A.G.12
Schuler, H.13
Luscher, B.14
-
16
-
-
21244444665
-
The macro domain is an ADP-ribose binding module
-
Karras GI, Kustatscher G, Buhecha HR, Allen MD, Pugieux C, Sait F, Bycroft M, Ladurner AG (2005) The macro domain is an ADP-ribose binding module. EMBO J 24:1911–1920.
-
(2005)
EMBO J
, vol.24
, pp. 1911-1920
-
-
Karras, G.I.1
Kustatscher, G.2
Buhecha, H.R.3
Allen, M.D.4
Pugieux, C.5
Sait, F.6
Bycroft, M.7
Ladurner, A.G.8
-
17
-
-
0025739985
-
Putative papain-related thiol proteases of positive-strand RNA viruses. Identification of rubi- and aphthovirus proteases and delineation of a novel conserved domain associated with proteases of rubi-, alpha- and coronaviruses
-
Gorbalenya AE, Koonin EV, Lai MM (1991) Putative papain-related thiol proteases of positive-strand RNA viruses. Identification of rubi- and aphthovirus proteases and delineation of a novel conserved domain associated with proteases of rubi-, alpha- and coronaviruses. FEBS Lett 288:201–205.
-
(1991)
FEBS Lett
, vol.288
, pp. 201-205
-
-
Gorbalenya, A.E.1
Koonin, E.V.2
Lai, M.M.3
-
18
-
-
0038047136
-
The crystal structure of AF1521 a protein from Archaeoglobus fulgidus with homology to the non-histone domain of macroH2A
-
Allen MD, Buckle AM, Cordell SC, Lowe J, Bycroft M (2003) The crystal structure of AF1521 a protein from Archaeoglobus fulgidus with homology to the non-histone domain of macroH2A. J Mol Biol 330:503–511.
-
(2003)
J Mol Biol
, vol.330
, pp. 503-511
-
-
Allen, M.D.1
Buckle, A.M.2
Cordell, S.C.3
Lowe, J.4
Bycroft, M.5
-
19
-
-
58149502555
-
Crystal structures of two coronavirus ADP-ribose-1''-monophosphatases and their complexes with ADP-Ribose: a systematic structural analysis of the viral ADRP domain
-
Xu Y, Cong L, Chen C, Wei L, Zhao Q, Xu X, Ma Y, Bartlam M, Rao Z (2009) Crystal structures of two coronavirus ADP-ribose-1''-monophosphatases and their complexes with ADP-Ribose: a systematic structural analysis of the viral ADRP domain. J Virol 83:1083–1092.
-
(2009)
J Virol
, vol.83
, pp. 1083-1092
-
-
Xu, Y.1
Cong, L.2
Chen, C.3
Wei, L.4
Zhao, Q.5
Xu, X.6
Ma, Y.7
Bartlam, M.8
Rao, Z.9
-
20
-
-
79953890881
-
Identification of macrodomain proteins as novel O-acetyl-ADP-ribose deacetylases
-
Chen D, Vollmar M, Rossi MN, Phillips C, Kraehenbuehl R, Slade D, Mehrotra PV, von Delft F, Crosthwaite SK, Gileadi O, Denu JM, Ahel I (2011) Identification of macrodomain proteins as novel O-acetyl-ADP-ribose deacetylases. J Biol Chem 286:13261–13271.
-
(2011)
J Biol Chem
, vol.286
, pp. 13261-13271
-
-
Chen, D.1
Vollmar, M.2
Rossi, M.N.3
Phillips, C.4
Kraehenbuehl, R.5
Slade, D.6
Mehrotra, P.V.7
von Delft, F.8
Crosthwaite, S.K.9
Gileadi, O.10
Denu, J.M.11
Ahel, I.12
-
21
-
-
53149094334
-
Substrate-assisted catalysis by PARP10 limits its activity to mono-ADP-ribosylation
-
Kleine H, Poreba E, Lesniewicz K, Hassa PO, Hottiger MO, Litchfield DW, Shilton BH, Luscher B (2008) Substrate-assisted catalysis by PARP10 limits its activity to mono-ADP-ribosylation. Mol Cell 32:57–69.
-
(2008)
Mol Cell
, vol.32
, pp. 57-69
-
-
Kleine, H.1
Poreba, E.2
Lesniewicz, K.3
Hassa, P.O.4
Hottiger, M.O.5
Litchfield, D.W.6
Shilton, B.H.7
Luscher, B.8
-
22
-
-
84861869442
-
Structure of mammalian poly(ADP-ribose) glycohydrolase reveals a flexible tyrosine clasp as a substrate-binding element
-
Kim IK, Kiefer JR, Ho CM, Stegeman RA, Classen S, Tainer JA, Ellenberger T (2012) Structure of mammalian poly(ADP-ribose) glycohydrolase reveals a flexible tyrosine clasp as a substrate-binding element. Nat Struct Mol Biol 19:653–656.
-
(2012)
Nat Struct Mol Biol
, vol.19
, pp. 653-656
-
-
Kim, I.K.1
Kiefer, J.R.2
Ho, C.M.3
Stegeman, R.A.4
Classen, S.5
Tainer, J.A.6
Ellenberger, T.7
-
23
-
-
84876186940
-
A family of macrodomain proteins reverses cellular mono-ADP-ribosylation
-
Jankevicius G, Hassler M, Golia B, Rybin V, Zacharias M, Timinszky G, Ladurner AG (2013) A family of macrodomain proteins reverses cellular mono-ADP-ribosylation. Nat Struct Mol Biol 20:508–514.
-
(2013)
Nat Struct Mol Biol
, vol.20
, pp. 508-514
-
-
Jankevicius, G.1
Hassler, M.2
Golia, B.3
Rybin, V.4
Zacharias, M.5
Timinszky, G.6
Ladurner, A.G.7
-
24
-
-
84876167387
-
Macrodomain-containing proteins are new mono-ADP-ribosylhydrolases
-
Rosenthal F, Feijs KL, Frugier E, Bonalli M, Forst AH, Imhof R, Winkler HC, Fischer D, Caflisch A, Hassa PO, Luscher B, Hottiger MO (2013) Macrodomain-containing proteins are new mono-ADP-ribosylhydrolases. Nat Struct Mol Biol 20:502–507.
-
(2013)
Nat Struct Mol Biol
, vol.20
, pp. 502-507
-
-
Rosenthal, F.1
Feijs, K.L.2
Frugier, E.3
Bonalli, M.4
Forst, A.H.5
Imhof, R.6
Winkler, H.C.7
Fischer, D.8
Caflisch, A.9
Hassa, P.O.10
Luscher, B.11
Hottiger, M.O.12
-
25
-
-
84877634923
-
Deficiency of terminal ADP-ribose protein glycohydrolase TARG1/C6orf130 in neurodegenerative disease
-
Sharifi R, Morra R, Appel CD, Tallis M, Chioza B, Jankevicius G, Simpson MA, Matic I, Ozkan E, Golia B, Schellenberg MJ, Weston R, Williams JG, Rossi MN, Galehdari H, Krahn J, Wan A, Trembath RC, Crosby AH, Ahel D, Hay R, Ladurner AG, Timinszky G, Williams RS, Ahel I (2013) Deficiency of terminal ADP-ribose protein glycohydrolase TARG1/C6orf130 in neurodegenerative disease. EMBO J 32:1225–1237.
-
(2013)
EMBO J
, vol.32
, pp. 1225-1237
-
-
Sharifi, R.1
Morra, R.2
Appel, C.D.3
Tallis, M.4
Chioza, B.5
Jankevicius, G.6
Simpson, M.A.7
Matic, I.8
Ozkan, E.9
Golia, B.10
Schellenberg, M.J.11
Weston, R.12
Williams, J.G.13
Rossi, M.N.14
Galehdari, H.15
Krahn, J.16
Wan, A.17
Trembath, R.C.18
Crosby, A.H.19
Ahel, D.20
Hay, R.21
Ladurner, A.G.22
Timinszky, G.23
Williams, R.S.24
Ahel, I.25
more..
-
26
-
-
4444221565
-
UCSF Chimera—a visualization system for exploratory research and analysis
-
Pettersen EF, Goddard TD, Huang CC, Couch GS, Greenblatt DM, Meng EC, Ferrin TE (2004) UCSF Chimera—a visualization system for exploratory research and analysis. J Comput Chem 25:1605–1612.
-
(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
-
27
-
-
84891668860
-
Validation of metal-binding sites in macromolecular structures with the CheckMyMetal web server
-
Zheng H, Chordia MD, Cooper DR, Chruszcz M, Muller P, Sheldrick GM, Minor W (2014) Validation of metal-binding sites in macromolecular structures with the CheckMyMetal web server. Nat Protoc 9:156–170.
-
(2014)
Nat Protoc
, vol.9
, pp. 156-170
-
-
Zheng, H.1
Chordia, M.D.2
Cooper, D.R.3
Chruszcz, M.4
Muller, P.5
Sheldrick, G.M.6
Minor, W.7
-
28
-
-
33747818007
-
CASTp: computed atlas of surface topography of proteins with structural and topographical mapping of functionally annotated residues
-
Dundas J, Ouyang Z, Tseng J, Binkowski A, Turpaz Y, Liang J (2006) CASTp: computed atlas of surface topography of proteins with structural and topographical mapping of functionally annotated residues. Nucleic Acids Res 34:W116–W118.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. W116-W118
-
-
Dundas, J.1
Ouyang, Z.2
Tseng, J.3
Binkowski, A.4
Turpaz, Y.5
Liang, J.6
-
29
-
-
77954288774
-
Dali server: conservation mapping in 3D
-
Holm L, Rosenstrom P (2010) Dali server: conservation mapping in 3D. Nucleic Acids Res 38:W545–W549.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. W545-W549
-
-
Holm, L.1
Rosenstrom, P.2
-
30
-
-
0031059866
-
Processing of X-ray diffraction data collected in oscillation mode
-
In, Carter JCW, Sweet R, Eds. (, New York,, Academic Press, pp
-
Otwinowski Z, Minor W, Processing of X-ray diffraction data collected in oscillation mode. In: Carter JCW, Sweet R, Eds. (1997) Methods in enzymology. New York, Academic Press, pp 307–326.
-
(1997)
Methods in enzymology
, pp. 307-326
-
-
Otwinowski, Z.1
Minor, W.2
-
31
-
-
76449098262
-
PHENIX: a comprehensive python-based system for macromolecular structure solution
-
Adams PD, Afonine PV, Bunkóczi G, Chen VB, Davis IW, Echols N, Headd JJ, Hung L-W, Kapral GJ, Grosse-Kunstleve RW, McCoy AJ, Moriarty NW, Oeffner R, Read RJ, Richardson DC, Richardson JS, Terwilliger TC, Zwart PH (2010) PHENIX: a comprehensive python-based system for macromolecular structure solution. Acta Cryst D66:213–221.
-
(2010)
Acta Cryst
, vol.D66
, pp. 213-221
-
-
Adams, P.D.1
Afonine, P.V.2
Bunkóczi, G.3
Chen, V.B.4
Davis, I.W.5
Echols, N.6
Headd, J.J.7
Hung, L.-W.8
Kapral, G.J.9
Grosse-Kunstleve, R.W.10
McCoy, A.J.11
Moriarty, N.W.12
Oeffner, R.13
Read, R.J.14
Richardson, D.C.15
Richardson, J.S.16
Terwilliger, T.C.17
Zwart, P.H.18
-
33
-
-
74549178560
-
MolProbity: all-atom structure validation for macromolecular crystallography
-
Chen VB, Arendall WB, III, Headd JJ, Keedy DA, Immormino RM, Kapral GJ, Murray LW, Richardson JS, Richardson DC (2010) MolProbity: all-atom structure validation for macromolecular crystallography. Acta Cryst D66:12–21.
-
(2010)
Acta Cryst
, vol.D66
, pp. 12-21
-
-
Chen, V.B.1
Arendall, W.B.2
Headd, J.J.3
Keedy, D.A.4
Immormino, R.M.5
Kapral, G.J.6
Murray, L.W.7
Richardson, J.S.8
Richardson, D.C.9
-
34
-
-
3242886771
-
PDB2PQR: an automated pipeline for the setup of Poisson–Boltzmann electrostatics calculations
-
Dolinsky TJ, Nielsen JE, McCammon JA, Baker NA (2004) PDB2PQR: an automated pipeline for the setup of Poisson–Boltzmann electrostatics calculations. Nucleic Acids Res 32:W665–W667.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. W665-W667
-
-
Dolinsky, T.J.1
Nielsen, J.E.2
McCammon, J.A.3
Baker, N.A.4
-
35
-
-
0035964342
-
Electrostatics of nanosystems: application to microtubules and the ribosome
-
Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA (2001) Electrostatics of nanosystems: application to microtubules and the ribosome. Proc Natl Acad Sci USA 98:10037–10041.
-
(2001)
Proc Natl Acad Sci USA
, vol.98
, pp. 10037-10041
-
-
Baker, N.A.1
Sept, D.2
Joseph, S.3
Holst, M.J.4
McCammon, J.A.5
-
36
-
-
0024297354
-
Multiple sequence alignment with hierarchical clustering
-
Corpet F (1988) Multiple sequence alignment with hierarchical clustering. Nucleic Acids Res 16:10881–10890.
-
(1988)
Nucleic Acids Res
, vol.16
, pp. 10881-10890
-
-
Corpet, F.1
-
37
-
-
84904790793
-
Deciphering key features in protein structures with the new ENDscript server
-
Robert X, Gouet P (2014) Deciphering key features in protein structures with the new ENDscript server. Nucleic Acids Res 42:W320–W324.
-
(2014)
Nucleic Acids Res
, vol.42
, pp. W320-W324
-
-
Robert, X.1
Gouet, P.2
|