PMID-sentid Pub_year Sent_text comp_official_name comp_offsetprotein_name organism prot_offset 19333786-5 2008 The model predicts that the activation begins with binding of dATP to Apaf-1, which initiates the interaction between Apaf-1 and cytochrome c, thus forming a complex that oligomerizes into an active caspase-9 holoenzyme via a linear binding model with cooperative interaction rather than through network formation. 2'-deoxyadenosine triphosphate 62-66 apoptotic peptidase activating factor 1 Homo sapiens 70-76 26265044-3 2015 As one of the major components of apoptosomes, apoptotic protease activating factor 1 (Apaf-1) facilitates the formation of apoptosomes containing cytochrome c (Cyto-c) and deoxyadenosine triphosphate (dATP). 2'-deoxyadenosine triphosphate 173-200 apoptotic peptidase activating factor 1 Homo sapiens 47-85 26265044-3 2015 As one of the major components of apoptosomes, apoptotic protease activating factor 1 (Apaf-1) facilitates the formation of apoptosomes containing cytochrome c (Cyto-c) and deoxyadenosine triphosphate (dATP). 2'-deoxyadenosine triphosphate 173-200 apoptotic peptidase activating factor 1 Homo sapiens 87-93 26265044-3 2015 As one of the major components of apoptosomes, apoptotic protease activating factor 1 (Apaf-1) facilitates the formation of apoptosomes containing cytochrome c (Cyto-c) and deoxyadenosine triphosphate (dATP). 2'-deoxyadenosine triphosphate 202-206 apoptotic peptidase activating factor 1 Homo sapiens 47-85 24987139-2 2014 In this protocol, cytosolic extracts prepared from cell culture are incubated with cytochrome c and adenosine triphosphate (dATP), leading to the oligomerization of apoptotic protease activating factor-1 (APAF-1) and the formation of the apoptosome. 2'-deoxyadenosine triphosphate 124-128 apoptotic peptidase activating factor 1 Homo sapiens 165-203 24987139-2 2014 In this protocol, cytosolic extracts prepared from cell culture are incubated with cytochrome c and adenosine triphosphate (dATP), leading to the oligomerization of apoptotic protease activating factor-1 (APAF-1) and the formation of the apoptosome. 2'-deoxyadenosine triphosphate 124-128 apoptotic peptidase activating factor 1 Homo sapiens 205-211 24626292-4 2014 Further analysis demonstrated formation of high-Mr Apaf-1 complexes associated with cleaved caspase-9 in the (cyt-c + dATP)-responsive COLO-699 and CALU-1 cells. 2'-deoxyadenosine triphosphate 118-122 apoptotic peptidase activating factor 1 Homo sapiens 51-57 24626292-6 2014 Thermal pre-treatment of cell-free cytosols in the absence of exogenous cyt-c and dATP lead to formation of Apaf-1 aggregates, unable to recruit and activate procaspase-9 in the presence of cyt-c and dATP, and to generate caspase-3-like activity. 2'-deoxyadenosine triphosphate 82-86 apoptotic peptidase activating factor 1 Homo sapiens 108-114 21297999-2 2011 This process can be recapitulated using recombinant Apaf-1 and CC in the presence of nucleotides ATP or dATP [(d)ATP] or using fresh cytosol and CC without the need of exogenous nucleotides. 2'-deoxyadenosine triphosphate 104-108 apoptotic peptidase activating factor 1 Homo sapiens 52-58 19801675-2 2009 Binding of mitochondrially released cytochrome c and of dATP or ATP to Apaf-1 induces the formation of the heptameric apoptosome complex, which in turn activates procaspase-9. 2'-deoxyadenosine triphosphate 56-60 apoptotic peptidase activating factor 1 Homo sapiens 71-77 19383546-1 2009 The apoptotic protease activating factor (Apaf-1) is a protein that binds to cytochrome c, and in the presence of dATP/ATP oligomerizes to assume the role of an adaptor platform for activating the caspase-9 zymogen. 2'-deoxyadenosine triphosphate 114-118 apoptotic peptidase activating factor 1 Homo sapiens 42-48 26543158-6 2015 Structural comparison with autoinhibited Apaf-1 revealed how dATP binding triggers a set of conformational changes that results in the formation of the apoptosome. 2'-deoxyadenosine triphosphate 61-65 apoptotic peptidase activating factor 1 Homo sapiens 41-47 26265044-3 2015 As one of the major components of apoptosomes, apoptotic protease activating factor 1 (Apaf-1) facilitates the formation of apoptosomes containing cytochrome c (Cyto-c) and deoxyadenosine triphosphate (dATP). 2'-deoxyadenosine triphosphate 202-206 apoptotic peptidase activating factor 1 Homo sapiens 87-93 19333786-5 2008 The model predicts that the activation begins with binding of dATP to Apaf-1, which initiates the interaction between Apaf-1 and cytochrome c, thus forming a complex that oligomerizes into an active caspase-9 holoenzyme via a linear binding model with cooperative interaction rather than through network formation. 2'-deoxyadenosine triphosphate 62-66 apoptotic peptidase activating factor 1 Homo sapiens 118-124 18439902-2 2008 The Apaf-1/cytochrome c complex then oligomerizes either into heptameric caspase-9-activating apoptosome, which subsequently activates caspase-3 and caspase-7, or bigger inactive aggregates, depending on the availability of nucleotide dATP/ATP. 2'-deoxyadenosine triphosphate 235-239 apoptotic peptidase activating factor 1 Homo sapiens 4-10 11550094-1 2001 Cytochrome c and dATP/ATP induce oligomerization of Apaf-1 into two distinct apoptosome complexes: an approximately 700 kDa complex, which recruits and activates caspases-9, -3 and -7, and an approximately 1.4 MDa complex, which recruits and processes caspase-9, but does not efficiently activate effector caspases. 2'-deoxyadenosine triphosphate 17-21 apoptotic peptidase activating factor 1 Homo sapiens 52-58 16271896-1 2005 Apaf-1 and cytochrome c coassemble in the presence of dATP to form the apoptosome. 2'-deoxyadenosine triphosphate 54-58 apoptotic peptidase activating factor 1 Homo sapiens 0-6 15794635-1 2005 ATP or dATP is a required activator of Apaf-1 for formation of the Apoptosome and thereby activation of caspase-9 (Csp9) [Zou, H., Henzel, W. J., Liu, X., Lutschg, A., and Wang, X. 2'-deoxyadenosine triphosphate 7-11 apoptotic peptidase activating factor 1 Homo sapiens 39-45 15794635-3 2005 Here we demonstrate that dATP or ATP may have an additional role in controlling Apaf-1-mediated Csp9 activation. 2'-deoxyadenosine triphosphate 25-29 apoptotic peptidase activating factor 1 Homo sapiens 80-86 15794635-4 2005 In the presence of cytochrome c (CytC), dATP or ATP binds to Apaf-1 and triggers heptamerization of Apaf-1 leading to the activation of Csp9. 2'-deoxyadenosine triphosphate 40-44 apoptotic peptidase activating factor 1 Homo sapiens 61-67 15794635-4 2005 In the presence of cytochrome c (CytC), dATP or ATP binds to Apaf-1 and triggers heptamerization of Apaf-1 leading to the activation of Csp9. 2'-deoxyadenosine triphosphate 40-44 apoptotic peptidase activating factor 1 Homo sapiens 100-106 12506111-2 2003 Binding of cytochrome c and dATP to Apaf-1 in the cytosol leads to the assembly of a heptameric complex in which each Apaf-1 subunit is bound noncovalently to a procaspase-9 subunit via their respective CARD domains. 2'-deoxyadenosine triphosphate 28-32 apoptotic peptidase activating factor 1 Homo sapiens 36-42 12506111-2 2003 Binding of cytochrome c and dATP to Apaf-1 in the cytosol leads to the assembly of a heptameric complex in which each Apaf-1 subunit is bound noncovalently to a procaspase-9 subunit via their respective CARD domains. 2'-deoxyadenosine triphosphate 28-32 apoptotic peptidase activating factor 1 Homo sapiens 118-124 17379327-2 2007 Caspase-9 binds to Apaf-1 in the presence of cytochrome c and dATP/ATP, and is activated by self-cleavage. 2'-deoxyadenosine triphosphate 62-66 apoptotic peptidase activating factor 1 Homo sapiens 19-25 15829969-3 2005 During apoptosis, Apaf-1 binds to cytochrome c and in the presence of ATP/dATP forms an apoptosome, leading to the recruitment and activation of the initiator caspase, caspase-9 (ref. 2'-deoxyadenosine triphosphate 74-78 apoptotic peptidase activating factor 1 Homo sapiens 18-24 15829969-9 2005 Apaf-1 binds to and hydrolyses ATP/dATP and their analogues. 2'-deoxyadenosine triphosphate 35-39 apoptotic peptidase activating factor 1 Homo sapiens 0-6 11779177-7 2002 Unlike its mammalian homologue Apaf-1, CED-4 exhibited a marked preference for ATP over dATP in filter binding studies and in competition experiments. 2'-deoxyadenosine triphosphate 88-92 apoptotic peptidase activating factor 1 Homo sapiens 39-44 11516099-6 2001 Activation of B-CLL lysates with dATP results in the formation of an approximately 700 kDa caspase-activating apoptosome complex containing Apaf-1. 2'-deoxyadenosine triphosphate 33-37 apoptotic peptidase activating factor 1 Homo sapiens 140-146 11415444-7 2001 In control dATP-activated lysates, Apaf-1 oligomerized to a biologically active caspase processing approximately 700 kDa complex and an inactive approximately 1.4 MDa complex. 2'-deoxyadenosine triphosphate 11-15 apoptotic peptidase activating factor 1 Homo sapiens 35-41 11550094-3 2001 We subsequently determined that caspase-3 cleaved Apaf-1 within its CED-4 domain (SVTD(271) downward arrowS) in both dATP-activated lysates and apoptotic cells to form a prominent approximately 30 kDa (p30) N-terminal fragment. 2'-deoxyadenosine triphosphate 117-121 apoptotic peptidase activating factor 1 Homo sapiens 50-56 11550094-4 2001 Purified recombinant Apaf-1 p30 fragment weakly inhibited dATP-dependent activation of caspase-3 in vitro. 2'-deoxyadenosine triphosphate 58-62 apoptotic peptidase activating factor 1 Homo sapiens 21-27 11035811-0 2000 Cytochrome c binding to Apaf-1: the effects of dATP and ionic strength. 2'-deoxyadenosine triphosphate 47-51 apoptotic peptidase activating factor 1 Homo sapiens 24-30 11264002-1 2001 Apaf-1 plays a crucial role in the cytochrome c/dATP-dependent activation of caspase-9 and -3. 2'-deoxyadenosine triphosphate 48-52 apoptotic peptidase activating factor 1 Homo sapiens 0-6 11230124-1 2001 During apoptosis, release of cytochrome c initiates dATP-dependent oligomerization of Apaf-1 and formation of the apoptosome. 2'-deoxyadenosine triphosphate 52-56 apoptotic peptidase activating factor 1 Homo sapiens 86-92 11071652-2 2000 To explain why deoxyadenosine and its analogs are toxic to a cell that is not undergoing replicative DNA synthesis, several mechanisms have been proposed, including the direct binding of dATP to the pro-apoptotic factor Apaf-1 and the activation of the caspase-9 and -3 pathways. 2'-deoxyadenosine triphosphate 187-191 apoptotic peptidase activating factor 1 Homo sapiens 220-226 11035811-3 2000 Here, we show through fluorescence polarization experiments that cytochrome c can bind to Apaf-1 in the absence of dATP; when dATP is added to the cytochrome c.Apaf-1 complex, further assembly occurs to produce the apoptosome. 2'-deoxyadenosine triphosphate 126-130 apoptotic peptidase activating factor 1 Homo sapiens 90-96 11035811-3 2000 Here, we show through fluorescence polarization experiments that cytochrome c can bind to Apaf-1 in the absence of dATP; when dATP is added to the cytochrome c.Apaf-1 complex, further assembly occurs to produce the apoptosome. 2'-deoxyadenosine triphosphate 126-130 apoptotic peptidase activating factor 1 Homo sapiens 160-166 10862031-8 2000 This and 2 other cell lines carrying APAF1 deletions also exhibited defects in dATP-mediated caspase-3 activation. 2'-deoxyadenosine triphosphate 79-83 apoptotic peptidase activating factor 1 Homo sapiens 37-42 10940292-2 2000 Using a nucleotide binding assay, we found that Apaf-1 alone bound dATP poorly and the nucleotide binding to Apaf-1 was significantly stimulated by cytochrome c. 2'-deoxyadenosine triphosphate 67-71 apoptotic peptidase activating factor 1 Homo sapiens 48-54 10940292-3 2000 The binding of dATP to Apaf-1 induces the formation of a multimeric Apaf-1. 2'-deoxyadenosine triphosphate 15-19 apoptotic peptidase activating factor 1 Homo sapiens 23-29 10940292-3 2000 The binding of dATP to Apaf-1 induces the formation of a multimeric Apaf-1. 2'-deoxyadenosine triphosphate 15-19 apoptotic peptidase activating factor 1 Homo sapiens 68-74 10940292-5 2000 Procaspase-9 also synergistically promotes dATP binding to Apaf-1 in a cytochrome c-dependent manner. 2'-deoxyadenosine triphosphate 43-47 apoptotic peptidase activating factor 1 Homo sapiens 59-65 10940292-8 2000 These data indicate that the key event in Apaf-1-mediated caspase-9 activation is cytochrome c-induced dATP binding to Apaf-1. 2'-deoxyadenosine triphosphate 103-107 apoptotic peptidase activating factor 1 Homo sapiens 42-48 10940292-8 2000 These data indicate that the key event in Apaf-1-mediated caspase-9 activation is cytochrome c-induced dATP binding to Apaf-1. 2'-deoxyadenosine triphosphate 103-107 apoptotic peptidase activating factor 1 Homo sapiens 119-125 10934467-1 2000 Release of cytochrome c from mitochondria by apoptotic signals induces ATP/dATP-dependent formation of the oligomeric Apaf-1-caspase-9 apoptosome. 2'-deoxyadenosine triphosphate 75-79 apoptotic peptidase activating factor 1 Homo sapiens 118-124 10692394-4 2000 We now demonstrate that dATP activation of cell lysates results in the formation of two large Apaf-1-containing apoptosome complexes with M(r) values of approximately 1.4 MDa and approximately 700 kDa. 2'-deoxyadenosine triphosphate 24-28 apoptotic peptidase activating factor 1 Homo sapiens 94-100 10722681-2 2000 Apaf-1 is an important apoptotic signaling molecule that can activate procaspase-9 in a cytochrome c/dATP-dependent fashion. 2'-deoxyadenosine triphosphate 101-105 apoptotic peptidase activating factor 1 Homo sapiens 0-6 10722681-7 2000 Functional analysis of all identified Apaf-1 isoforms demonstrated that only those with the additional WD-40 repeat activated procaspase 9 in vitro in response to cytochrome c and dATP, while the NH(2)-terminal insert was not required for this activity. 2'-deoxyadenosine triphosphate 180-184 apoptotic peptidase activating factor 1 Homo sapiens 38-44 10393175-0 1999 Role of cytochrome c and dATP/ATP hydrolysis in Apaf-1-mediated caspase-9 activation and apoptosis. 2'-deoxyadenosine triphosphate 25-29 apoptotic peptidase activating factor 1 Homo sapiens 48-54 10687948-2 2000 When cells receive apoptotic stimuli, mitochondria releases cytochrome c which then binds to Apaf-1, the mammalian Ced-4 homologue, together with dATP. 2'-deoxyadenosine triphosphate 146-150 apoptotic peptidase activating factor 1 Homo sapiens 115-120 10617581-2 2000 We previously demonstrated that that the 5"-triphosphate metabolite of 2CdA (2CdATP), similar to dATP, can cooperate with cytochrome c and apoptosis protein-activating factor-1 (APAF-1) to trigger a caspase pathway in a HeLa cell-free system. 2'-deoxyadenosine triphosphate 79-83 apoptotic peptidase activating factor 1 Homo sapiens 139-176 10617581-2 2000 We previously demonstrated that that the 5"-triphosphate metabolite of 2CdA (2CdATP), similar to dATP, can cooperate with cytochrome c and apoptosis protein-activating factor-1 (APAF-1) to trigger a caspase pathway in a HeLa cell-free system. 2'-deoxyadenosine triphosphate 79-83 apoptotic peptidase activating factor 1 Homo sapiens 178-184 10619022-2 1999 Like mammalian APAF-1, HAC-1 can activate caspases in a dATP-dependent manner in vitro. 2'-deoxyadenosine triphosphate 56-60 apoptotic peptidase activating factor 1 Homo sapiens 15-21 10409627-4 1999 Apaf-1 dimerization was repressed by the C-terminal half of the molecule, which contains multiple WD-40 repeats, but this repression was overcome in the presence of cytochrome c and dATP. 2'-deoxyadenosine triphosphate 182-186 apoptotic peptidase activating factor 1 Homo sapiens 0-6 10393175-6 1999 Mutation of Met368 to Leu enabled Apaf-1 to self-associate and bind procaspase-9 independent of cytochrome c, though still requiring dATP/ATP for these activities. 2'-deoxyadenosine triphosphate 133-137 apoptotic peptidase activating factor 1 Homo sapiens 34-40 10393175-3 1999 The product of this Apaf-1 cDNA activated procaspase-9 in a cytochrome c and dATP/ATP-dependent manner. 2'-deoxyadenosine triphosphate 77-81 apoptotic peptidase activating factor 1 Homo sapiens 20-26 10393175-4 1999 We used this Apaf-1 to show that Apaf-1 requires dATP/ATP hydrolysis to interact with cytochrome c, self-associate and bind to procaspase-9. 2'-deoxyadenosine triphosphate 49-53 apoptotic peptidase activating factor 1 Homo sapiens 13-19 10393175-4 1999 We used this Apaf-1 to show that Apaf-1 requires dATP/ATP hydrolysis to interact with cytochrome c, self-associate and bind to procaspase-9. 2'-deoxyadenosine triphosphate 49-53 apoptotic peptidase activating factor 1 Homo sapiens 33-39 10364241-4 1999 However, when dATP is added to the cytochrome c-bound Apaf-1 complex, complete oligomerization occurs, suggesting that oligomerization is driven by hydrolysis of dATP. 2'-deoxyadenosine triphosphate 14-18 apoptotic peptidase activating factor 1 Homo sapiens 54-60 10364241-4 1999 However, when dATP is added to the cytochrome c-bound Apaf-1 complex, complete oligomerization occurs, suggesting that oligomerization is driven by hydrolysis of dATP. 2'-deoxyadenosine triphosphate 162-166 apoptotic peptidase activating factor 1 Homo sapiens 54-60 10206961-2 1999 APAF-1 binds and hydrolyzes ATP or dATP to ADP or dADP, respectively. 2'-deoxyadenosine triphosphate 35-39 apoptotic peptidase activating factor 1 Homo sapiens 0-6 10206961-3 1999 The hydrolysis of ATP/dATP and the binding of cytochrome c promote APAF-1 oligomerization, forming a large multimeric APAF-1.cytochrome c complex. 2'-deoxyadenosine triphosphate 22-26 apoptotic peptidase activating factor 1 Homo sapiens 67-73 10206961-3 1999 The hydrolysis of ATP/dATP and the binding of cytochrome c promote APAF-1 oligomerization, forming a large multimeric APAF-1.cytochrome c complex. 2'-deoxyadenosine triphosphate 22-26 apoptotic peptidase activating factor 1 Homo sapiens 118-124 10021389-7 1999 Addition of dATP (which stimulates the procaspase-processing factor Apaf-1 [8] [9]) overcame inhibition of caspase activation by Bcl-2, but did not prevent the control of cytochrome c release from mitochondria by Bcl-2. 2'-deoxyadenosine triphosphate 12-16 apoptotic peptidase activating factor 1 Homo sapiens 68-74 9598997-1 1998 Previous studies have shown that Apaf-1 and caspase-9 in the presence of cytochrome c and dATP can form an initiating complex for an apoptotic protease cascade. 2'-deoxyadenosine triphosphate 90-94 apoptotic peptidase activating factor 1 Homo sapiens 33-39 9689121-3 1998 The present experiments demonstrate that the 5"-triphosphate metabolite of 2CdA (2CdA-5"-triphosphate), similar to dATP, can cooperate with cytochrome c and Apaf-1 to activate caspase-3 in a cell free system. 2'-deoxyadenosine triphosphate 115-119 apoptotic peptidase activating factor 1 Homo sapiens 157-163 10611963-9 1999 This pathway is regulated at several steps, including the release of cytochrome c from the mitochondria, the binding and hydrolysis of dATP/ATP by Apaf-1, and the inhibition of caspase activation by the proteins that belong to the inhibitors of apoptosis (IAP). 2'-deoxyadenosine triphosphate 135-139 apoptotic peptidase activating factor 1 Homo sapiens 147-153 33132160-5 2021 This allows Apaf-1 to bind dATP or ATP and to form the apoptosome, which activates caspase-9. 2'-deoxyadenosine triphosphate 27-31 apoptotic peptidase activating factor 1 Homo sapiens 12-18 9390557-3 1997 Caspase-9 and Apaf-1 bind to each other via their respective NH2-terminal CED-3 homologous domains in the presence of cytochrome c and dATP, an event that leads to caspase-9 activation. 2'-deoxyadenosine triphosphate 135-139 apoptotic peptidase activating factor 1 Homo sapiens 14-20