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3CLX
Biol. Unit 5
Info
Asym.Unit (81 KB)
Biol.Unit 1 (20 KB)
Biol.Unit 2 (20 KB)
Biol.Unit 3 (22 KB)
Biol.Unit 4 (21 KB)
Biol.Unit 5 (39 KB)
Biol.Unit 6 (38 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF XIAP BIR3 DOMAIN IN COMPLEX WITH A SMAC-MIMETIC COMPOUND, SMAC005
Authors
:
M. Milani, E. Mastrangelo, F. Cossu
Date
:
20 Mar 08 (Deposition) - 28 Oct 08 (Release) - 09 Jun 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: A,C (1x)
Biol. Unit 6: B,D (1x)
Keywords
:
Zinc-Finger, Apoptosis, Cytoplasm, Ligase, Metal-Binding, Phosphoprotein, Polymorphism, Protease Inhibitor, Thiol Protease Inhibitor, Ubl Conjugation, Ubl Conjugation Pathway
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. Mastrangelo, F. Cossu, M. Milani, G. Sorrentino, D. Lecis, D. Delia, L. Manzoni, C. Drago, P. Seneci, C. Scolastico, V. Rizzo, M. Bolognesi
Targeting The X-Linked Inhibitor Of Apoptosis Protein Through 4-Substituted Azabicyclo[5. 3. 0]Alkane Smac Mimetics. Structure, Activity, And Recognition Principles.
J. Mol. Biol. V. 384 673 2008
(for further references see the
PDB file header
)
[
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Hetero Components
(1, 4)
Info
All Hetero Components
1a: (3S,6S,7S,9AS)-6-{[(2S)-2-AMINOBUT... (X22a)
1b: (3S,6S,7S,9AS)-6-{[(2S)-2-AMINOBUT... (X22b)
1c: (3S,6S,7S,9AS)-6-{[(2S)-2-AMINOBUT... (X22c)
1d: (3S,6S,7S,9AS)-6-{[(2S)-2-AMINOBUT... (X22d)
1e: (3S,6S,7S,9AS)-6-{[(2S)-2-AMINOBUT... (X22e)
1f: (3S,6S,7S,9AS)-6-{[(2S)-2-AMINOBUT... (X22f)
2a: ZINC ION (ZNa)
2b: ZINC ION (ZNb)
2c: ZINC ION (ZNc)
2d: ZINC ION (ZNd)
View:
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Label:
No.
Name
Count
Type
Full Name
1
X22
4
Ligand/Ion
(3S,6S,7S,9AS)-6-{[(2S)-2-AMINOBUTANOYL]AMINO}-N-(DIPHENYLMETHYL)-7-(HYDROXYMETHYL)-5-OXOOCTAHYDRO-1H-PYRROLO[1,2-A]AZEPINE-3-CARBOXAMIDE
2
ZN
-1
Ligand/Ion
ZINC ION
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Sites
(7, 7)
Info
All Sites
1: AC2 (SOFTWARE)
2: AC4 (SOFTWARE)
3: AC5 (SOFTWARE)
4: AC6 (SOFTWARE)
5: AC8 (SOFTWARE)
6: AC9 (SOFTWARE)
7: BC1 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC2
SOFTWARE
CYS A:300 , CYS A:303 , HIS A:320 , CYS A:327
BINDING SITE FOR RESIDUE ZN A 502
2
AC4
SOFTWARE
CYS C:300 , CYS C:303 , HIS C:320 , CYS C:327
BINDING SITE FOR RESIDUE ZN C 502
3
AC5
SOFTWARE
GLU A:318 , X22 C:700 , LYS D:297 , GLY D:306 , LEU D:307 , THR D:308 , ASP D:309 , GLU D:314 , TRP D:323 , TYR D:324
BINDING SITE FOR RESIDUE X22 D 600
4
AC6
SOFTWARE
HOH A:17 , LYS A:297 , GLY A:306 , LEU A:307 , THR A:308 , ASP A:309 , GLU A:314 , GLN A:319 , TRP A:323 , TYR A:324 , LEU C:352
BINDING SITE FOR RESIDUE X22 A 600
5
AC8
SOFTWARE
TYR A:338 , THR A:345 , GLN C:336 , GLU C:337 , ILE C:339 , ASN C:340 , HIS C:343 , LEU C:344 , SER C:347 , HOH D:12 , ARG D:258 , GLY D:304 , LYS D:322 , TRP D:323 , TYR D:324 , X22 D:600
BINDING SITE FOR RESIDUE X22 C 700
6
AC9
SOFTWARE
GLU B:318 , ILE B:342 , THR B:345 , GLU B:349 , LYS C:297 , GLY C:306 , LEU C:307 , THR C:308 , TRP C:310 , GLU C:314 , GLN C:319 , TRP C:323 , TYR C:324
BINDING SITE FOR RESIDUE X22 C 600
7
BC1
SOFTWARE
TYR B:338 , THR B:345 , HOH C:20 , CYS C:303 , LYS C:322 , TRP C:323 , TYR C:324 , PRO C:325 , HOH D:33 , PRO D:325 , GLN D:336 , GLU D:337 , ASN D:340 , HIS D:343 , LEU D:344 , SER D:347
BINDING SITE FOR RESIDUE X22 C 701
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: BIR_REPEAT_1 (A:265-330,C:265-330)
2: BIR_REPEAT_2 (A:268-331,C:268-331)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
BIR_REPEAT_1
PS01282
BIR repeat.
XIAP_HUMAN
26-93
163-230
265-330
2
-
-
A:265-330
-
C:265-330
-
2
BIR_REPEAT_2
PS50143
BIR repeat profile.
XIAP_HUMAN
29-94
166-231
268-331
2
-
-
A:268-331
-
C:268-331
-
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d3clxa_ (A:)
1b: SCOP_d3clxb_ (B:)
1c: SCOP_d3clxc_ (C:)
1d: SCOP_d3clxd_ (D:)
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)
(
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(
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Small proteins
(3458)
Fold
:
Inhibitor of apoptosis (IAP) repeat
(71)
Superfamily
:
Inhibitor of apoptosis (IAP) repeat
(71)
Family
:
Inhibitor of apoptosis (IAP) repeat
(70)
Protein domain
:
BIR domains of XIAP
(15)
Human (Homo sapiens) [TaxId: 9606]
(15)
1a
d3clxa_
A:
1b
d3clxb_
B:
1c
d3clxc_
C:
1d
d3clxd_
D:
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_3clxA00 (A:256-354)
1b: CATH_3clxC00 (C:256-353)
1c: CATH_3clxB00 (B:254-354)
1d: CATH_3clxD00 (D:254-354)
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)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Inhibitor Of Apoptosis Protein (2mihbC-IAP-1); Chain A
(42)
Homologous Superfamily
:
Inhibitor Of Apoptosis Protein (2mihbC-IAP-1); Chain A
(42)
Human (Homo sapiens)
(35)
1a
3clxA00
A:256-354
1b
3clxC00
C:256-353
1c
3clxB00
B:254-354
1d
3clxD00
D:254-354
[
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Show PDB file:
Asym.Unit (81 KB)
Header - Asym.Unit
Biol.Unit 1 (20 KB)
Header - Biol.Unit 1
Biol.Unit 2 (20 KB)
Header - Biol.Unit 2
Biol.Unit 3 (22 KB)
Header - Biol.Unit 3
Biol.Unit 4 (21 KB)
Header - Biol.Unit 4
Biol.Unit 5 (39 KB)
Header - Biol.Unit 5
Biol.Unit 6 (38 KB)
Header - Biol.Unit 6
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