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3FDM
Asym. Unit
Info
Asym.Unit (94 KB)
Biol.Unit 1 (60 KB)
Biol.Unit 2 (57 KB)
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(1)
Title
:
ALPHA/BETA FOLDAMER IN COMPLEX WITH BCL-XL
Authors
:
W. D. Fairlie, E. F. Lee, B. J. Smith, P. E. Czabotar, P. M. Colman, J. D. Sadowsky, K. J. Peterson-Kaufman, S. H. Gellman
Date
:
26 Nov 08 (Deposition) - 10 Mar 09 (Release) - 09 Jun 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.26
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,D,E (1x)
Biol. Unit 2: C,F (2x)
Keywords
:
Protein-Peptide Complex, Helical Bundle, Foldamer, Apoptosis, Alternative Splicing, Membrane, Mitochondrion, Nucleus, Transmembrane
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. F. Lee, J. D. Sadowsky, B. J. Smith, P. E. Czabotar, K. J. Peterson-Kaufman, P. M. Colman, S. H. Gellman, W. D. Fairlie
High-Resolution Structural Characterization Of A Helical Alpha/Beta-Peptide Foldamer Bound To The Anti-Apoptotic Protein Bcl-X(L)
Angew. Chem. Int. Ed. Engl. V. 48 4318 2009
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(6, 30)
Info
All Hetero Components
1a: ACETYL GROUP (ACEa)
2a: (3S)-3-AMINO-5-METHYLHEXANOIC ACID (B3La)
2b: (3S)-3-AMINO-5-METHYLHEXANOIC ACID (B3Lb)
2c: (3S)-3-AMINO-5-METHYLHEXANOIC ACID (B3Lc)
3a: 1,2-ETHANEDIOL (EDOa)
3b: 1,2-ETHANEDIOL (EDOb)
3c: 1,2-ETHANEDIOL (EDOc)
3d: 1,2-ETHANEDIOL (EDOd)
3e: 1,2-ETHANEDIOL (EDOe)
3f: 1,2-ETHANEDIOL (EDOf)
3g: 1,2-ETHANEDIOL (EDOg)
3h: 1,2-ETHANEDIOL (EDOh)
3i: 1,2-ETHANEDIOL (EDOi)
3j: 1,2-ETHANEDIOL (EDOj)
3k: 1,2-ETHANEDIOL (EDOk)
4a: AMINO GROUP (NH2a)
4b: AMINO GROUP (NH2b)
4c: AMINO GROUP (NH2c)
5a: (1S,2S)-2-AMINOCYCLOPENTANECARBOXY... (XCPa)
5b: (1S,2S)-2-AMINOCYCLOPENTANECARBOXY... (XCPb)
5c: (1S,2S)-2-AMINOCYCLOPENTANECARBOXY... (XCPc)
5d: (1S,2S)-2-AMINOCYCLOPENTANECARBOXY... (XCPd)
5e: (1S,2S)-2-AMINOCYCLOPENTANECARBOXY... (XCPe)
5f: (1S,2S)-2-AMINOCYCLOPENTANECARBOXY... (XCPf)
5g: (1S,2S)-2-AMINOCYCLOPENTANECARBOXY... (XCPg)
5h: (1S,2S)-2-AMINOCYCLOPENTANECARBOXY... (XCPh)
5i: (1S,2S)-2-AMINOCYCLOPENTANECARBOXY... (XCPi)
6a: (3S,4R)-4-AMINOPYRROLIDINE-3-CARBO... (XPCa)
6b: (3S,4R)-4-AMINOPYRROLIDINE-3-CARBO... (XPCb)
6c: (3S,4R)-4-AMINOPYRROLIDINE-3-CARBO... (XPCc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACE
1
Mod. Amino Acid
ACETYL GROUP
2
B3L
3
Mod. Amino Acid
(3S)-3-AMINO-5-METHYLHEXANOIC ACID
3
EDO
11
Ligand/Ion
1,2-ETHANEDIOL
4
NH2
3
Mod. Amino Acid
AMINO GROUP
5
XCP
9
Mod. Amino Acid
(1S,2S)-2-AMINOCYCLOPENTANECARBOXYLIC ACID
6
XPC
3
Mod. Amino Acid
(3S,4R)-4-AMINOPYRROLIDINE-3-CARBOXYLIC ACID
[
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]
Sites
(11, 11)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:92 , ALA A:93 , GLU A:96 , TYR A:195 , ASN A:198 , EDO A:213 , ARG D:15
BINDING SITE FOR RESIDUE EDO A 210
02
AC2
SOFTWARE
ALA A:168 , TRP A:169 , THR A:172 , ALA B:168 , TRP B:169 , THR B:172 , HOH B:238
BINDING SITE FOR RESIDUE EDO A 211
03
AC3
SOFTWARE
ASP A:156 , LYS B:20 , TYR B:22
BINDING SITE FOR RESIDUE EDO A 212
04
AC4
SOFTWARE
GLU A:96 , ARG A:100 , ASN A:198 , EDO A:210 , HOH A:258 , ARG D:15
BINDING SITE FOR RESIDUE EDO A 213
05
AC5
SOFTWARE
ASP A:95 , GLU A:98 , LEU A:99 , HOH A:284
BINDING SITE FOR RESIDUE EDO A 214
06
AC6
SOFTWARE
ARG A:102 , PHE A:105 , SER A:145 , PHE A:146 , ALA A:149 , HOH A:264
BINDING SITE FOR RESIDUE EDO A 215
07
AC7
SOFTWARE
HOH A:35 , GLN A:88 , ASP A:95 , HOH A:249 , HOH A:251 , TYR B:15
BINDING SITE FOR RESIDUE EDO A 216
08
AC8
SOFTWARE
LEU B:194 , TYR B:195 , GLY B:196 , HOH B:242 , HOH B:290 , ARG E:15
BINDING SITE FOR RESIDUE EDO B 210
09
AC9
SOFTWARE
SER B:18 , TYR B:22 , SER B:23 , HOH B:30 , ASN B:197
BINDING SITE FOR RESIDUE EDO B 211
10
BC1
SOFTWARE
SER A:0 , VAL A:163 , SER B:23 , TRP B:24
BINDING SITE FOR RESIDUE EDO B 212
11
BC2
SOFTWARE
TRP A:24 , SER B:2 , HOH B:76 , SER B:164
BINDING SITE FOR RESIDUE EDO B 213
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(6, 18)
Info
All PROSITE Patterns/Profiles
1: BH4_1 (A:4-24,B:4-24,C:4-24)
2: BH4_2 (A:5-24,B:5-24,C:5-24)
3: BH3 (A:86-100,B:86-100,C:86-100)
4: BCL2_FAMILY (A:90-190,B:90-190,C:90-190)
5: BH1 (A:130-148,B:130-148,C:130-148)
6: BH2 (A:181-192,B:181-192,C:181-192)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
BH4_1
PS01260
Apoptosis regulator, Bcl-2 family BH4 motif signature.
B2CL1_HUMAN
4-24
3
A:4-24
B:4-24
C:4-24
2
BH4_2
PS50063
Apoptosis regulator, Bcl-2 family BH4 motif profile.
B2CL1_HUMAN
5-24
3
A:5-24
B:5-24
C:5-24
3
BH3
PS01259
Apoptosis regulator, Bcl-2 family BH3 motif signature.
B2CL1_HUMAN
86-100
3
A:86-100
B:86-100
C:86-100
4
BCL2_FAMILY
PS50062
BCL2-like apoptosis inhibitors family profile.
B2CL1_HUMAN
90-190
3
A:90-190
B:90-190
C:90-190
5
BH1
PS01080
Apoptosis regulator, Bcl-2 family BH1 motif signature.
B2CL1_HUMAN
130-148
3
A:130-148
B:130-148
C:130-148
6
BH2
PS01258
Apoptosis regulator, Bcl-2 family BH2 motif signature.
B2CL1_HUMAN
181-192
3
A:181-192
B:181-192
C:181-192
[
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]
Exons
(2, 6)
Info
All Exons
Exon 1.3a (A:1-188 (gaps) | B:1-188 (gaps) | ...)
Exon 1.4c (A:189-198 | B:189-197 | C:189-198)
View:
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All Exon Boundaries
1: Boundary -/1.3a
2: Boundary 1.3a/1.4c
3: Boundary 1.4c/-
View:
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.3a
ENST00000376062
3a
ENSE00001469279
chr20:
30310400-30309458
943
B2CL1_HUMAN
1-188
188
3
A:1-188 (gaps)
B:1-188 (gaps)
C:2-188 (gaps)
188
188
187
1.4c
ENST00000376062
4c
ENSE00001469296
chr20:
30253889-30252255
1635
B2CL1_HUMAN
189-233
45
3
A:189-198
B:189-197
C:189-198
10
9
10
[
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]
SCOP Domains
(1, 3)
Info
All SCOP Domains
1a: SCOP_d3fdma_ (A:)
1b: SCOP_d3fdmb_ (B:)
1c: SCOP_d3fdmc_ (C:)
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Protein Domains
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(
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Organisms
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(
)
Class
:
Membrane and cell surface proteins and peptides
(2046)
Fold
:
Toxins' membrane translocation domains
(135)
Superfamily
:
Bcl-2 inhibitors of programmed cell death
(113)
Family
:
Bcl-2 inhibitors of programmed cell death
(102)
Protein domain
:
automated matches
(33)
Human (Homo sapiens) [TaxId: 9606]
(31)
1a
d3fdma_
A:
1b
d3fdmb_
B:
1c
d3fdmc_
C:
[
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Chain E
Chain F
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