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* Residue conservation analysis
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PDB id:
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Complex (apoptosis/peptide)
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Title:
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Structure of bcl-xl/bak peptide complex, nmr, minimized average structure
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Structure:
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Bcl-xl. Chain: a. Engineered: yes. Bak peptide. Chain: b. Fragment: residues 572 - 587 of bak protein. Engineered: yes
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Source:
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Escherichia coli. Organism_taxid: 562. Strain: hms174 (de3). Expressed in: escherichia coli. Expression_system_taxid: 562. 205, deletion mutant lacking a flexible loop (residues 45- 84) and thE C-terminal hydrophobic region, with a c- terminal his-tag.
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NMR struc:
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1 models
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Authors:
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M.Sattler,H.Liang,D.Nettesheim,R.P.Meadows,J.E.Harlan, M.Eberstadt,H.Yoon,S.B.Shuker,B.S.Chang,A.J.Minn, C.B.Thompson,S.W.Fesik
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Key ref:
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M.Sattler
et al.
(1997).
Structure of Bcl-xL-Bak peptide complex: recognition between regulators of apoptosis.
Science,
275,
983-986.
PubMed id:
DOI:
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Date:
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16-Oct-96
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Release date:
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29-Oct-97
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PROCHECK
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Headers
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References
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Gene Ontology (GO) functional annotation
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Cellular component
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Bcl-2 family protein complex
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15 terms
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Biological process
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growth
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36 terms
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Biochemical function
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protein binding
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3 terms
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DOI no:
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Science
275:983-986
(1997)
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PubMed id:
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Structure of Bcl-xL-Bak peptide complex: recognition between regulators of apoptosis.
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M.Sattler,
H.Liang,
D.Nettesheim,
R.P.Meadows,
J.E.Harlan,
M.Eberstadt,
H.S.Yoon,
S.B.Shuker,
B.S.Chang,
A.J.Minn,
C.B.Thompson,
S.W.Fesik.
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ABSTRACT
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Heterodimerization between members of the Bcl-2 family of proteins is a key
event in the regulation of programmed cell death. The molecular basis for
heterodimer formation was investigated by determination of the solution
structure of a complex between the survival protein Bcl-xL and the
death-promoting region of the Bcl-2-related protein Bak. The structure and
binding affinities of mutant Bak peptides indicate that the Bak peptide adopts
an amphipathic alpha helix that interacts with Bcl-xL through hydrophobic and
electrostatic interactions. Mutations in full-length Bak that disrupt either
type of interaction inhibit the ability of Bak to heterodimerize with Bcl-xL.
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Selected figure(s)
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Figure 1.
Fig. 1. (A) Stereoview of the backbone (N, C^ , C
) of 15
superimposed NMR-derived structures of Bcl-x[L] (shown in black)
complexed^ with the 16-amino acid Bak peptide (shown in red).
(B) Ribbons (21) depiction of the averaged minimized NMR
structure^ for the complex. The BH1, BH2, and BH3 regions of
Bcl-x[L] are shown in yellow, red, and green, respectively. The
Bak peptide is shown in magenta.
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Figure 2.
Fig. 2. (A) Surface representation of the binding pocket of
Bcl-x[L] bound to the Bak peptide. Hydrophobic residues showing
NOEs to the peptide are colored in yellow, whereas Arg139/Arg100
and Glu129 are colored in blue and red, respectively. Residues
of Bcl-x[L] are labeled in white and the Bak peptide in black.
(B) Depiction of the side chains in the binding site of
Bcl-x[L]. Hydrophobic^ side chains of the protein showing NOEs
to the peptide are colored^ in yellow. Side chains of positively
and negatively charged side^ chains interacting with the peptide
are colored in blue and red, respectively. The peptide side
chains are colored by atom type. Residues of Bcl-x[L] and the
Bak peptide are labeled in black and^ green, respectively.
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The above figures are
reprinted
by permission from the AAAs:
Science
(1997,
275,
983-986)
copyright 1997.
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Figures were
selected
by an automated process.
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Literature references that cite this PDB file's key reference
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PubMed id
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Reference
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A.S.Azmi,
Z.Wang,
P.A.Philip,
R.M.Mohammad,
and
F.H.Sarkar
(2011).
Emerging Bcl-2 inhibitors for the treatment of cancer.
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Expert Opin Emerg Drugs, 16,
59-70.
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|
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A.Shamas-Din,
H.Brahmbhatt,
B.Leber,
and
D.W.Andrews
(2011).
BH3-only proteins: Orchestrators of apoptosis.
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Biochim Biophys Acta, 1813,
508-520.
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|
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B.Juhásová,
I.Bhatia-Kiššová,
K.Polčicová,
M.Mentel,
M.Forte,
and
P.Polčic
(2011).
Reconstitution of interactions of Murine gammaherpesvirus 68 M11 with Bcl-2 family proteins in yeast.
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Biochem Biophys Res Commun, 407,
783-787.
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B.Ku,
C.Liang,
J.U.Jung,
and
B.H.Oh
(2011).
Evidence that inhibition of BAX activation by BCL-2 involves its tight and preferential interaction with the BH3 domain of BAX.
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Cell Res, 21,
627-641.
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PDB code:
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B.Zhou,
X.Li,
Y.Li,
Y.Xu,
Z.Zhang,
M.Zhou,
X.Zhang,
Z.Liu,
J.Zhou,
C.Cao,
B.Yu,
and
R.Wang
(2011).
Discovery and development of thiazolo[3,2-a]pyrimidinone derivatives as general inhibitors of Bcl-2 family proteins.
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ChemMedChem, 6,
904-921.
|
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|
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C.Katz,
L.Levy-Beladev,
S.Rotem-Bamberger,
T.Rito,
S.G.Rüdiger,
and
A.Friedler
(2011).
Studying protein-protein interactions using peptide arrays.
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Chem Soc Rev, 40,
2131-2145.
|
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|
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D.Westphal,
G.Dewson,
P.E.Czabotar,
and
R.M.Kluck
(2011).
Molecular biology of Bax and Bak activation and action.
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Biochim Biophys Acta, 1813,
521-531.
|
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|
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|
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E.F.Lee,
O.B.Clarke,
M.Evangelista,
Z.Feng,
T.P.Speed,
E.B.Tchoubrieva,
A.Strasser,
B.H.Kalinna,
P.M.Colman,
and
W.D.Fairlie
(2011).
Discovery and molecular characterization of a Bcl-2-regulated cell death pathway in schistosomes.
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Proc Natl Acad Sci U S A, 108,
6999-7003.
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PDB code:
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J.Lindsay,
M.D.Esposti,
and
A.P.Gilmore
(2011).
Bcl-2 proteins and mitochondria--specificity in membrane targeting for death.
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Biochim Biophys Acta, 1813,
532-539.
|
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|
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|
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M.Guharoy,
A.Pal,
M.Dasgupta,
and
P.Chakrabarti
(2011).
PRICE (PRotein Interface Conservation and Energetics): a server for the analysis of protein-protein interfaces.
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J Struct Funct Genomics, 12,
33-41.
|
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|
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|
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T.A.Fuchsluger,
U.Jurkunas,
A.Kazlauskas,
and
R.Dana
(2011).
Corneal endothelial cells are protected from apoptosis by gene therapy.
|
| |
Hum Gene Ther, 22,
549-558.
|
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|
|
|
|
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A.Tripathi,
and
G.E.Kellogg
(2010).
A novel and efficient tool for locating and characterizing protein cavities and binding sites.
|
| |
Proteins, 78,
825-842.
|
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|
|
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|
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B.Leibowitz,
and
J.Yu
(2010).
Mitochondrial signaling in cell death via the Bcl-2 family.
|
| |
Cancer Biol Ther, 9,
417-422.
|
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|
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|
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C.R.Braun,
J.Mintseris,
E.Gavathiotis,
G.H.Bird,
S.P.Gygi,
and
L.D.Walensky
(2010).
Photoreactive stapled BH3 peptides to dissect the BCL-2 family interactome.
|
| |
Chem Biol, 17,
1325-1333.
|
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|
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|
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D.M.Hockenbery
(2010).
Targeting mitochondria for cancer therapy.
|
| |
Environ Mol Mutagen, 51,
476-489.
|
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E.Fire,
S.V.Gullá,
R.A.Grant,
and
A.E.Keating
(2010).
Mcl-1-Bim complexes accommodate surprising point mutations via minor structural changes.
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Protein Sci, 19,
507-519.
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PDB codes:
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E.Gavathiotis,
D.E.Reyna,
M.L.Davis,
G.H.Bird,
and
L.D.Walensky
(2010).
BH3-triggered structural reorganization drives the activation of proapoptotic BAX.
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| |
Mol Cell, 40,
481-492.
|
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|
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|
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F.Campbell,
J.P.Plante,
T.A.Edwards,
S.L.Warriner,
and
A.J.Wilson
(2010).
N-alkylated oligoamide alpha-helical proteomimetics.
|
| |
Org Biomol Chem, 8,
2344-2351.
|
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|
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|
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F.Hagn,
C.Klein,
O.Demmer,
N.Marchenko,
A.Vaseva,
U.M.Moll,
and
H.Kessler
(2010).
BclxL changes conformation upon binding to wild-type but not mutant p53 DNA binding domain.
|
| |
J Biol Chem, 285,
3439-3450.
|
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|
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|
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G.J.Rautureau,
C.L.Day,
and
M.G.Hinds
(2010).
Intrinsically disordered proteins in bcl-2 regulated apoptosis.
|
| |
Int J Mol Sci, 11,
1808-1824.
|
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|
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|
|
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H.Zhao,
W.Guo,
C.Peng,
T.Ji,
and
X.Lu
(2010).
Arsenic trioxide inhibits the growth of Adriamycin resistant osteosarcoma cells through inducing apoptosis.
|
| |
Mol Biol Rep, 37,
2509-2515.
|
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|
|
|
|
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J.Y.Zheng,
and
N.N.Boustany
(2010).
Alterations in the characteristic size distributions of subcellular scatterers at the onset of apoptosis: effect of Bcl-xL and Bax/Bak.
|
| |
J Biomed Opt, 15,
045002.
|
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|
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|
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L.Fischer,
and
G.Guichard
(2010).
Folding and self-assembly of aromatic and aliphatic urea oligomers: towards connecting structure and function.
|
| |
Org Biomol Chem, 8,
3101-3117.
|
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|
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|
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L.Prochazka,
L.F.Dong,
K.Valis,
R.Freeman,
S.J.Ralph,
J.Turanek,
and
J.Neuzil
(2010).
alpha-Tocopheryl succinate causes mitochondrial permeabilization by preferential formation of Bak channels.
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Apoptosis, 15,
782-794.
|
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|
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L.Sborgi,
S.Barrera-Vilarmau,
P.Obregón,
and
E.de Alba
(2010).
Characterization of a novel interaction between Bcl-2 members Diva and Harakiri.
|
| |
PLoS One, 5,
e15575.
|
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|
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|
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M.L.Stewart,
E.Fire,
A.E.Keating,
and
L.D.Walensky
(2010).
The MCL-1 BH3 helix is an exclusive MCL-1 inhibitor and apoptosis sensitizer.
|
| |
Nat Chem Biol, 6,
595-601.
|
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PDB code:
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M.Vogler,
S.D.Furdas,
M.Jung,
T.Kuwana,
M.J.Dyer,
and
G.M.Cohen
(2010).
Diminished sensitivity of chronic lymphocytic leukemia cells to ABT-737 and ABT-263 due to albumin binding in blood.
|
| |
Clin Cancer Res, 16,
4217-4225.
|
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|
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|
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N.London,
B.Raveh,
D.Movshovitz-Attias,
and
O.Schueler-Furman
(2010).
Can self-inhibitory peptides be derived from the interfaces of globular protein-protein interactions?
|
| |
Proteins, 78,
3140-3149.
|
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|
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S.Bleicken,
M.Classen,
P.V.Padmavathi,
T.Ishikawa,
K.Zeth,
H.J.Steinhoff,
and
E.Bordignon
(2010).
Molecular details of Bax activation, oligomerization, and membrane insertion.
|
| |
J Biol Chem, 285,
6636-6647.
|
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|
|
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|
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S.Campbell,
B.Hazes,
M.Kvansakul,
P.Colman,
and
M.Barry
(2010).
Vaccinia virus F1L interacts with Bak using highly divergent Bcl-2 homology domains and replaces the function of Mcl-1.
|
| |
J Biol Chem, 285,
4695-4708.
|
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|
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|
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S.Kurtulus,
P.Tripathi,
J.T.Opferman,
and
D.A.Hildeman
(2010).
Contracting the 'mus cells'--does down-sizing suit us for diving into the memory pool?
|
| |
Immunol Rev, 236,
54-67.
|
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|
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|
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A.J.García-Sáez,
J.Ries,
M.Orzáez,
E.Pérez-Payà,
and
P.Schwille
(2009).
Membrane promotes tBID interaction with BCL(XL).
|
| |
Nat Struct Mol Biol, 16,
1178-1185.
|
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|
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|
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A.M.Almerico,
M.Tutone,
and
A.Lauria
(2009).
In-silico screening of new potential Bcl-2/Bcl-xl inhibitors as apoptosis modulators.
|
| |
J Mol Model, 15,
349-355.
|
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|
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|
|
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E.F.Lee,
A.Fedorova,
K.Zobel,
M.J.Boyle,
H.Yang,
M.A.Perugini,
P.M.Colman,
D.C.Huang,
K.Deshayes,
and
W.D.Fairlie
(2009).
Novel Bcl-2 homology-3 domain-like sequences identified from screening randomized peptide libraries for inhibitors of the pro-survival Bcl-2 proteins.
|
| |
J Biol Chem, 284,
31315-31326.
|
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|
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|
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E.F.Lee,
J.D.Sadowsky,
B.J.Smith,
P.E.Czabotar,
K.J.Peterson-Kaufman,
P.M.Colman,
S.H.Gellman,
and
W.D.Fairlie
(2009).
High-resolution structural characterization of a helical alpha/beta-peptide foldamer bound to the anti-apoptotic protein Bcl-xL.
|
| |
Angew Chem Int Ed Engl, 48,
4318-4322.
|
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PDB codes:
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E.F.Lee,
P.E.Czabotar,
H.Yang,
B.E.Sleebs,
G.Lessene,
P.M.Colman,
B.J.Smith,
and
W.D.Fairlie
(2009).
Conformational changes in Bcl-2 pro-survival proteins determine their capacity to bind ligands.
|
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J Biol Chem, 284,
30508-30517.
|
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PDB codes:
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G.Brien,
A.L.Debaud,
X.Robert,
L.Oliver,
M.C.Trescol-Biemont,
N.Cauquil,
O.Geneste,
N.Aghajari,
F.M.Vallette,
R.Haser,
and
N.Bonnefoy-Berard
(2009).
C-terminal residues regulate localization and function of the antiapoptotic protein Bfl-1.
|
| |
J Biol Chem, 284,
30257-30263.
|
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|
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|
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G.Dewson,
and
R.M.Kluck
(2009).
Mechanisms by which Bak and Bax permeabilise mitochondria during apoptosis.
|
| |
J Cell Sci, 122,
2801-2808.
|
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|
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|
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G.Moroy,
E.Martin,
A.Dejaegere,
and
R.H.Stote
(2009).
Molecular basis for Bcl-2 homology 3 domain recognition in the Bcl-2 protein family: identification of conserved hot spot interactions.
|
| |
J Biol Chem, 284,
17499-17511.
|
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|
|
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|
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H.Dai,
X.W.Meng,
S.H.Lee,
P.A.Schneider,
and
S.H.Kaufmann
(2009).
Context-dependent Bcl-2/Bak interactions regulate lymphoid cell apoptosis.
|
| |
J Biol Chem, 284,
18311-18322.
|
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|
|
|
|
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H.Kim,
H.C.Tu,
D.Ren,
O.Takeuchi,
J.R.Jeffers,
G.P.Zambetti,
J.J.Hsieh,
and
E.H.Cheng
(2009).
Stepwise activation of BAX and BAK by tBID, BIM, and PUMA initiates mitochondrial apoptosis.
|
| |
Mol Cell, 36,
487-499.
|
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|
|
|
|
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J.M.Rodriguez,
L.Nevola,
N.T.Ross,
G.I.Lee,
and
A.D.Hamilton
(2009).
Synthetic inhibitors of extended helix-protein interactions based on a biphenyl 4,4'-dicarboxamide scaffold.
|
| |
Chembiochem, 10,
829-833.
|
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|
|
|
|
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J.M.Rodriguez,
N.T.Ross,
W.P.Katt,
D.Dhar,
G.I.Lee,
and
A.D.Hamilton
(2009).
Structure and function of benzoylurea-derived alpha-helix mimetics targeting the Bcl-x(L)/Bak binding interface.
|
| |
ChemMedChem, 4,
649-656.
|
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|
|
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|
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J.Sun,
D.M.Abdeljabbar,
N.Clarke,
M.L.Bellows,
C.A.Floudas,
and
A.J.Link
(2009).
Reconstitution and engineering of apoptotic protein interactions on the bacterial cell surface.
|
| |
J Mol Biol, 394,
297-305.
|
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|
|
|
|
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J.Wei,
M.F.Rega,
S.Kitada,
H.Yuan,
D.Zhai,
P.Risbood,
H.H.Seltzman,
C.E.Twine,
J.C.Reed,
and
M.Pellecchia
(2009).
Synthesis and evaluation of Apogossypol atropisomers as potential Bcl-xL antagonists.
|
| |
Cancer Lett, 273,
107-113.
|
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|
|
|
|
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K.R.Rockwell,
and
B.T.Huber
(2009).
Biologically distinct conformations of Bcl-x can be resolved using 2D isoelectric focusing.
|
| |
Mol Immunol, 46,
1605-1612.
|
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|
|
|
|
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M.Orzáez,
A.Gortat,
L.Mondragón,
and
E.Pérez-Payá
(2009).
Peptides and peptide mimics as modulators of apoptotic pathways.
|
| |
ChemMedChem, 4,
146-160.
|
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|
|
|
|
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N.S.Chari,
N.L.Pinaire,
L.Thorpe,
L.J.Medeiros,
M.J.Routbort,
and
T.J.McDonnell
(2009).
The p53 tumor suppressor network in cancer and the therapeutic modulation of cell death.
|
| |
Apoptosis, 14,
336-347.
|
 |
|
|
|
|
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R.Besch,
H.Poeck,
T.Hohenauer,
D.Senft,
G.Häcker,
C.Berking,
V.Hornung,
S.Endres,
T.Ruzicka,
S.Rothenfusser,
and
G.Hartmann
(2009).
Proapoptotic signaling induced by RIG-I and MDA-5 results in type I interferon-independent apoptosis in human melanoma cells.
|
| |
J Clin Invest, 119,
2399-2411.
|
 |
|
|
|
|
 |
R.L.van Montfort,
and
P.Workman
(2009).
Structure-based design of molecular cancer therapeutics.
|
| |
Trends Biotechnol, 27,
315-328.
|
 |
|
|
|
|
 |
S.Oda,
M.Schröder,
and
A.R.Khan
(2009).
Structural basis for targeting of human RNA helicase DDX3 by poxvirus protein K7.
|
| |
Structure, 17,
1528-1537.
|
 |
|
PDB code:
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|
|
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|
 |
W.Novak,
H.Wang,
and
G.Krilov
(2009).
Role of protein flexibility in the design of Bcl-X(L) targeting agents: insight from molecular dynamics.
|
| |
J Comput Aided Mol Des, 23,
49-61.
|
 |
|
|
|
|
 |
W.Wolfson
(2009).
Aileron staples peptides.
|
| |
Chem Biol, 16,
910-912.
|
 |
|
|
|
|
 |
Y.Yao,
A.A.Bobkov,
L.A.Plesniak,
and
F.M.Marassi
(2009).
Mapping the interaction of pro-apoptotic tBID with pro-survival BCL-XL.
|
| |
Biochemistry, 48,
8704-8711.
|
 |
|
|
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PDB code:
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