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2NPA
Asym. Unit
Info
Asym.Unit (95 KB)
Biol.Unit 1 (47 KB)
Biol.Unit 2 (46 KB)
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(1)
Title
:
THE CRYSTAL STRUCTURE OF THE HUMAN PPARAPLPHA LIGAND BINDING DOMAIN IN COMPLEX WITH A A-HYDROXYIMINO PHENYLPROPANOIC ACID
Authors
:
K. H. Kim, H. K. Chung, H. O. Han, S. H. Kim, J. S. Koh, G. T. Kim
Date
:
26 Oct 06 (Deposition) - 30 Oct 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Protein-Agonist Complex, Transcription
(Keyword Search:
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)
Reference
:
H. O. Han, S. H. Kim, K. H. Kim, G. C. Hur, H. J. Yim, H. K. Chung, S. H. Woo, K. D. Koo, C. S. Lee, J. S. Koh, G. T. Kim
Design And Synthesis Of Oxime Ethers Of Alpha-Acyl-Beta-Phenylpropanoic Acids As Ppar Dual Agonists
Bioorg. Med. Chem. Lett. V. 17 937 2007
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: (2R,3E)-2-{4-[(5-METHYL-2-PHENYL-1... (MMBa)
1b: (2R,3E)-2-{4-[(5-METHYL-2-PHENYL-1... (MMBb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MMB
2
Ligand/Ion
(2R,3E)-2-{4-[(5-METHYL-2-PHENYL-1,3-OXAZOL-4-YL)METHOXY]BENZYL}-3-(PROPOXYIMINO)BUTANOIC ACID
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ILE A:272 , PHE A:273 , CYS A:275 , CYS A:276 , GLN A:277 , SER A:280 , TYR A:314 , LEU A:321 , VAL A:332 , ILE A:354 , MET A:355 , HIS A:440 , TYR A:464 , HOH A:1203
BINDING SITE FOR RESIDUE MMB A 1201
2
AC2
SOFTWARE
PHE C:273 , CYS C:276 , SER C:280 , TYR C:314 , LEU C:321 , VAL C:332 , ILE C:354 , HIS C:440 , LEU C:460 , TYR C:464 , HOH C:2209
BINDING SITE FOR RESIDUE MMB C 2201
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SAPs(SNPs)/Variants
(6, 12)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_016112 (V227A, chain A/C, )
2: VAR_016113 (A268V, chain A/C, )
3: VAR_016114 (D304N, chain A/C, )
4: VAR_050578 (G395R, chain A/C, )
5: VAR_016115 (R409T, chain A/C, )
6: VAR_019772 (E685A, chain B/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_016112
V
227
A
PPARA_HUMAN
Polymorphism
1800234
A/C
V
227
A
2
UniProt
VAR_016113
A
268
V
PPARA_HUMAN
Polymorphism
1042311
A/C
A
268
V
3
UniProt
VAR_016114
D
304
N
PPARA_HUMAN
Polymorphism
1800242
A/C
D
304
N
4
UniProt
VAR_050578
G
395
R
PPARA_HUMAN
Polymorphism
2229245
A/C
G
395
R
5
UniProt
VAR_016115
R
409
T
PPARA_HUMAN
Polymorphism
1800243
A/C
R
409
T
6
UniProt
VAR_019772
E
685
A
NCOA1_HUMAN
Polymorphism
1049021
B/D
E
685
A
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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End label:
Sorry, no Info available
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]
Exons
(4, 8)
Info
All Exons
Exon 1.12a (A:199-237 | C:199-237)
Exon 1.13 (A:238-387 | C:238-387 (gaps))
Exon 1.14c (A:387-467 | C:387-468)
Exon 2.15a (B:683-697 | D:685-694)
View:
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Label:
All Exon Boundaries
1: Boundary 1.11/1.12a
2: Boundary 1.12a/1.13
3: Boundary 1.13/1.14c
4: Boundary 1.14c/-
5: Boundary 2.14/2.15a
6: Boundary 2.15a/2.16a
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
1.1c
ENST00000262735
1c
ENSE00001411734
chr22:
46546499-46546555
57
PPARA_HUMAN
-
0
0
-
-
1.3c
ENST00000262735
3c
ENSE00001046654
chr22:
46547791-46547873
83
PPARA_HUMAN
-
0
0
-
-
1.9b
ENST00000262735
9b
ENSE00001434891
chr22:
46594239-46594488
250
PPARA_HUMAN
1-70
70
0
-
-
1.10a
ENST00000262735
10a
ENSE00000657264
chr22:
46611070-46611230
161
PPARA_HUMAN
70-123
54
0
-
-
1.11
ENST00000262735
11
ENSE00000657266
chr22:
46614160-46614298
139
PPARA_HUMAN
124-170
47
0
-
-
1.12a
ENST00000262735
12a
ENSE00000657268
chr22:
46615709-46615911
203
PPARA_HUMAN
170-237
68
2
A:199-237
C:199-237
39
39
1.13
ENST00000262735
13
ENSE00000657269
chr22:
46627689-46628136
448
PPARA_HUMAN
238-387
150
2
A:238-387
C:238-387 (gaps)
150
150
1.14c
ENST00000262735
14c
ENSE00000880791
chr22:
46631030-46639653
8624
PPARA_HUMAN
387-468
82
2
A:387-467
C:387-468
81
82
2.5c
ENST00000348332
5c
ENSE00001412482
chr2:
24807346-24807429
84
NCOA1_HUMAN
-
0
0
-
-
2.6b
ENST00000348332
6b
ENSE00001353786
chr2:
24866835-24866991
157
NCOA1_HUMAN
-
0
0
-
-
2.7a
ENST00000348332
7a
ENSE00002170964
chr2:
24881530-24881635
106
NCOA1_HUMAN
1-30
30
0
-
-
2.8
ENST00000348332
8
ENSE00001070983
chr2:
24888618-24888784
167
NCOA1_HUMAN
30-86
57
0
-
-
2.9
ENST00000348332
9
ENSE00001781523
chr2:
24896235-24896332
98
NCOA1_HUMAN
86-118
33
0
-
-
2.10
ENST00000348332
10
ENSE00001796214
chr2:
24905820-24905997
178
NCOA1_HUMAN
119-178
60
0
-
-
2.11
ENST00000348332
11
ENSE00001070993
chr2:
24914350-24914529
180
NCOA1_HUMAN
178-238
61
0
-
-
2.12
ENST00000348332
12
ENSE00001070995
chr2:
24916121-24916216
96
NCOA1_HUMAN
238-270
33
0
-
-
2.13
ENST00000348332
13
ENSE00001070992
chr2:
24920527-24920667
141
NCOA1_HUMAN
270-317
48
0
-
-
2.14
ENST00000348332
14
ENSE00001071000
chr2:
24927955-24928102
148
NCOA1_HUMAN
317-366
50
0
-
-
2.15a
ENST00000348332
15a
ENSE00001070985
chr2:
24929437-24930757
1321
NCOA1_HUMAN
366-806
441
2
B:683-697
D:685-694
15
10
2.16a
ENST00000348332
16a
ENSE00000808887
chr2:
24933800-24933980
181
NCOA1_HUMAN
807-867
61
0
-
-
2.17
ENST00000348332
17
ENSE00000808888
chr2:
24949458-24949575
118
NCOA1_HUMAN
867-906
40
0
-
-
2.18
ENST00000348332
18
ENSE00000808889
chr2:
24951177-24951345
169
NCOA1_HUMAN
906-962
57
0
-
-
2.19
ENST00000348332
19
ENSE00000808890
chr2:
24952370-24952684
315
NCOA1_HUMAN
963-1067
105
0
-
-
2.20
ENST00000348332
20
ENSE00000726392
chr2:
24962301-24962402
102
NCOA1_HUMAN
1068-1101
34
0
-
-
2.21
ENST00000348332
21
ENSE00000726395
chr2:
24964653-24965055
403
NCOA1_HUMAN
1102-1236
135
0
-
-
2.22
ENST00000348332
22
ENSE00000808891
chr2:
24974851-24975025
175
NCOA1_HUMAN
1236-1294
59
0
-
-
2.23
ENST00000348332
23
ENSE00000726401
chr2:
24980842-24981025
184
NCOA1_HUMAN
1294-1355
62
0
-
-
2.24
ENST00000348332
24
ENSE00000726404
chr2:
24985556-24985645
90
NCOA1_HUMAN
1356-1385
30
0
-
-
2.26b
ENST00000348332
26b
ENSE00001797482
chr2:
24991090-24993571
2482
NCOA1_HUMAN
1386-1441
56
0
-
-
[
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SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2npaa_ (A:)
1b: SCOP_d2npac_ (C:)
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Classes
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Protein Domains
(
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(
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(
)
Class
:
All alpha proteins
(14657)
Fold
:
Nuclear receptor ligand-binding domain
(609)
Superfamily
:
Nuclear receptor ligand-binding domain
(609)
Family
:
Nuclear receptor ligand-binding domain
(598)
Protein domain
:
Peroxisome proliferator activated receptor alpha, PPAR-alpha
(14)
Human (Homo sapiens) [TaxId: 9606]
(14)
1a
d2npaa_
A:
1b
d2npac_
C:
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2npaC00 (C:199-468)
1b: CATH_2npaA00 (A:199-467)
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(
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Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Retinoid X Receptor
(409)
Homologous Superfamily
:
Retinoid X Receptor
(409)
Human (Homo sapiens)
(337)
1a
2npaC00
C:199-468
1b
2npaA00
A:199-467
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_Hormone_recep_2npaC01 (C:241-450)
1b: PFAM_Hormone_recep_2npaC02 (C:241-450)
2a: PFAM_SRC_1_2npaD01 (D:685-694)
2b: PFAM_SRC_1_2npaD02 (D:685-694)
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(
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(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Hormone_recep]
(290)
Family
:
Hormone_recep
(290)
Homo sapiens (Human)
(244)
1a
Hormone_recep-2npaC01
C:241-450
1b
Hormone_recep-2npaC02
C:241-450
Clan
:
no clan defined [family: SRC-1]
(47)
Family
:
SRC-1
(47)
Homo sapiens (Human)
(33)
2a
SRC-1-2npaD01
D:685-694
2b
SRC-1-2npaD02
D:685-694
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