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2RG8
Asym. Unit
Info
Asym.Unit (61 KB)
Biol.Unit 1 (29 KB)
Biol.Unit 2 (29 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PROGRAMMED FOR CELL DEATH 4 MIDDLE MA3 DOMAIN
Authors
:
R. Garces, C. Suzuki, G. Wagner
Date
:
03 Oct 07 (Deposition) - 04 Mar 08 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Ma3 Domain, Heat Repeats, Anti-Oncogene, Apoptosis, Cell Cycle, Cytoplasm, Nucleus, Phosphorylation, Polymorphism, Rna-Binding, Translation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. Suzuki, R. G. Garces, K. A. Edmonds, S. Hiller, S. G. Hyberts, A. Marintchev, G. Wagner
Pdcd4 Inhibits Translation Initiation By Binding To Eif4A Using Both Its Ma3 Domains.
Proc. Natl. Acad. Sci. Usa V. 105 3274 2008
(for further references see the
PDB file header
)
[
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Hetero Components
(3, 15)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
2a: SELENOMETHIONINE (MSEa)
2b: SELENOMETHIONINE (MSEb)
2c: SELENOMETHIONINE (MSEc)
2d: SELENOMETHIONINE (MSEd)
2e: SELENOMETHIONINE (MSEe)
2f: SELENOMETHIONINE (MSEf)
2g: SELENOMETHIONINE (MSEg)
2h: SELENOMETHIONINE (MSEh)
2i: SELENOMETHIONINE (MSEi)
2j: SELENOMETHIONINE (MSEj)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
3c: SODIUM ION (NAc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
2
Ligand/Ion
CHLORIDE ION
2
MSE
10
Mod. Amino Acid
SELENOMETHIONINE
3
NA
3
Ligand/Ion
SODIUM ION
[
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Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:160 , ARG A:162 , ALA A:163 , LYS A:297 , ASN B:192
BINDING SITE FOR RESIDUE CL A 1
2
AC2
SOFTWARE
GLY B:284 , THR B:285 , ARG B:292
BINDING SITE FOR RESIDUE CL B 2
3
AC3
SOFTWARE
SER B:220 , ASP B:271 , HOH B:307
BINDING SITE FOR RESIDUE NA B 3
4
AC4
SOFTWARE
SER A:220 , ARG A:267 , ASP A:271 , HOH A:308
BINDING SITE FOR RESIDUE NA A 4
5
AC5
SOFTWARE
HOH A:310 , ARG B:216 , LEU B:260 , GLN B:263 , PHE B:264 , HOH B:312
BINDING SITE FOR RESIDUE NA B 5
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: MI (A:163-284,B:163-284|-)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
MI
PS51366
MI domain profile.
PDCD4_HUMAN
163-284
326-449
2
A:163-284
B:163-284
-
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Exons
(4, 8)
Info
All Exons
Exon 1.8c (A:156-185 | B:157-185)
Exon 1.9e (A:186-259 | B:186-259)
Exon 1.10 (A:260-292 | B:260-292)
Exon 1.11a (A:292-305 | B:292-305)
View:
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All Exon Boundaries
1: Boundary 1.7/1.8c
2: Boundary 1.8c/1.9e
3: Boundary 1.9e/1.10
4: Boundary 1.10/1.11a
5: Boundary 1.11a/1.12b
View:
Label:
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
1.1a
ENST00000280154
1a
ENSE00001922986
chr10:
112631565-112631776
212
PDCD4_HUMAN
-
0
0
-
-
1.2
ENST00000280154
2
ENSE00002190882
chr10:
112635724-112635828
105
PDCD4_HUMAN
1-15
15
0
-
-
1.6a
ENST00000280154
6a
ENSE00001380538
chr10:
112640991-112641293
303
PDCD4_HUMAN
15-116
102
0
-
-
1.7
ENST00000280154
7
ENSE00000995567
chr10:
112642761-112642855
95
PDCD4_HUMAN
116-147
32
0
-
-
1.8c
ENST00000280154
8c
ENSE00001094657
chr10:
112645011-112645124
114
PDCD4_HUMAN
148-185
38
2
A:156-185
B:157-185
30
29
1.9e
ENST00000280154
9e
ENSE00002200197
chr10:
112647423-112647644
222
PDCD4_HUMAN
186-259
74
2
A:186-259
B:186-259
74
74
1.10
ENST00000280154
10
ENSE00001788034
chr10:
112649291-112649388
98
PDCD4_HUMAN
260-292
33
2
A:260-292
B:260-292
33
33
1.11a
ENST00000280154
11a
ENSE00001772839
chr10:
112650314-112650428
115
PDCD4_HUMAN
292-330
39
2
A:292-305
B:292-305
14
14
1.12b
ENST00000280154
12b
ENSE00001599108
chr10:
112653849-112653956
108
PDCD4_HUMAN
331-366
36
0
-
-
1.13
ENST00000280154
13
ENSE00001674744
chr10:
112654170-112654280
111
PDCD4_HUMAN
367-403
37
0
-
-
1.14b
ENST00000280154
14b
ENSE00001636249
chr10:
112655706-112655845
140
PDCD4_HUMAN
404-450
47
0
-
-
1.15e
ENST00000280154
15e
ENSE00001840051
chr10:
112657786-112659764
1979
PDCD4_HUMAN
450-469
20
0
-
-
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SCOP Domains
(0, 0)
Info
All SCOP Domains
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Sorry, no Info available
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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
(1, 2)
Info
all PFAM domains
1a: PFAM_MA3_2rg8B01 (B:164-275)
1b: PFAM_MA3_2rg8B02 (B:164-275)
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Clans
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)
(
)
Clan
:
TPR
(230)
Family
:
MA3
(5)
Homo sapiens (Human)
(5)
1a
MA3-2rg8B01
B:164-275
1b
MA3-2rg8B02
B:164-275
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (61 KB)
Header - Asym.Unit
Biol.Unit 1 (29 KB)
Header - Biol.Unit 1
Biol.Unit 2 (29 KB)
Header - Biol.Unit 2
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