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Getting 'Exon' information from database.
3E00
Asym. Unit
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Asym.Unit (125 KB)
Biol.Unit 1 (117 KB)
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(1)
Title
:
INTACT PPAR GAMMA - RXR ALPHA NUCLEAR RECEPTOR COMPLEX ON DNA BOUND WITH GW9662, 9-CIS RETINOIC ACID AND NCOA2 PEPTIDE
Authors
:
V. Chandra, P. Huang, Y. Hamuro, S. Raghuram, Y. Wang, T. P. Burris, F. Ra
Date
:
30 Jul 08 (Deposition) - 28 Oct 08 (Release) - 16 Nov 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.10
Chains
:
Asym. Unit : A,C,D,E,F,G
Biol. Unit 1: A,C,D,E,F,G (1x)
Keywords
:
Dna-Binding, Host-Virus Interaction, Metal-Binding, Nucleus, Receptor, Transcription, Transcription Regulation, Zinc-Finger, Activator, Diabetes Mellitus, Disease Mutation, Obesity, Phosphoprotein, Transcription-Dna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
V. Chandra, P. Huang, Y. Hamuro, S. Raghuram, Y. Wang, T. P. Burris, F. Rastinejad
Structure Of The Intact Ppar-Gamma-Rxr- Nuclear Receptor Complex On Dna.
Nature V. 456 350 2008
[
close entry info
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Hetero Components
(3, 6)
Info
All Hetero Components
1a: (9CIS)-RETINOIC ACID (9CRa)
2a: 2-CHLORO-5-NITRO-N-PHENYLBENZAMIDE (GW9a)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
9CR
1
Ligand/Ion
(9CIS)-RETINOIC ACID
2
GW9
1
Ligand/Ion
2-CHLORO-5-NITRO-N-PHENYLBENZAMIDE
3
ZN
4
Ligand/Ion
ZINC ION
[
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
CYS D:111 , CYS D:114 , CYS D:128 , CYS D:131
BINDING SITE FOR RESIDUE ZN D 7121
2
AC2
SOFTWARE
CYS D:148 , CYS D:152 , CYS D:162 , CYS D:165
BINDING SITE FOR RESIDUE ZN D 7122
3
AC3
SOFTWARE
CYS A:135 , CYS A:138 , CYS A:152 , CYS A:155
BINDING SITE FOR RESIDUE ZN A 7221
4
AC4
SOFTWARE
CYS A:171 , CYS A:177 , CYS A:187 , CYS A:190
BINDING SITE FOR RESIDUE ZN A 7222
5
AC5
SOFTWARE
ILE A:268 , ALA A:271 , GLN A:275 , TRP A:305 , PHE A:313 , ARG A:316 , ALA A:327 , HIS A:435
BINDING SITE FOR RESIDUE 9CR A 7223
6
AC6
SOFTWARE
PHE D:282 , CYS D:285 , SER D:289 , LEU D:330 , TYR D:473
BINDING SITE FOR RESIDUE GW9 D 7123
[
close Site info
]
SAPs(SNPs)/Variants
(9, 9)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_010725 (Q286P, chain D, )
2: VAR_010726 (R288H, chain D, )
3: VAR_010727 (V290M, chain D, )
4: VAR_050582 (A327S, chain A, )
5: VAR_014621 (S336I, chain A, )
6: VAR_022700 (F360L, chain D, )
7: VAR_022701 (R397C, chain D, )
8: VAR_050583 (A398V, chain A, )
9: VAR_010728 (P467L, chain D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_010725
Q
314
P
PPARG_HUMAN
Unclassified
28936407
D
Q
286
P
2
UniProt
VAR_010726
R
316
H
PPARG_HUMAN
Unclassified
28936407
D
R
288
H
3
UniProt
VAR_010727
V
318
M
PPARG_HUMAN
Unclassified
---
D
V
290
M
4
UniProt
VAR_050582
A
327
S
RXRA_HUMAN
Polymorphism
1805345
A
A
327
S
5
UniProt
VAR_014621
S
336
I
RXRA_HUMAN
Polymorphism
1805345
A
S
336
I
6
UniProt
VAR_022700
F
388
L
PPARG_HUMAN
Disease (FPLD3)
---
D
F
360
L
7
UniProt
VAR_022701
R
425
C
PPARG_HUMAN
Disease (FPLD3)
---
D
R
397
C
8
UniProt
VAR_050583
A
398
V
RXRA_HUMAN
Polymorphism
11542209
A
A
398
V
9
UniProt
VAR_010728
P
495
L
PPARG_HUMAN
Unclassified
---
D
P
467
L
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: NUCLEAR_REC_DBD_2 (A:132-207,D:108-182)
2: NUCLEAR_REC_DBD_1 (A:135-161,D:111-137)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
NUCLEAR_REC_DBD_2
PS51030
Nuclear hormone receptors DNA-binding domain profile.
RXRA_HUMAN
132-207
1
A:132-207
PPARG_HUMAN
136-210
1
D:108-182
2
NUCLEAR_REC_DBD_1
PS00031
Nuclear hormones receptors DNA-binding region signature.
RXRA_HUMAN
135-161
1
A:135-161
PPARG_HUMAN
139-165
1
D:111-137
[
close PROSITE info
]
Exons
(5, 5)
Info
All Exons
Exon 1.9b (D:107-132)
Exon 1.10 (D:133-179)
Exon 1.12a (D:179-245)
Exon 1.13 (D:246-396 (gaps))
Exon 1.14e (D:396-477)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.8b/1.9b
2: Boundary 1.9b/1.10
3: Boundary 1.10/1.12a
4: Boundary 1.12a/1.13
5: Boundary 1.13/1.14e
6: Boundary 1.14e/-
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
1.6a
ENST00000287820
6a
ENSE00002160702
chr3:
12392971-12393173
203
PPARG_HUMAN
1-28
28
0
-
-
1.8b
ENST00000287820
8b
ENSE00001774542
chr3:
12421203-12421430
228
PPARG_HUMAN
28-104
77
0
-
-
1.9b
ENST00000287820
9b
ENSE00001762865
chr3:
12422821-12422990
170
PPARG_HUMAN
104-160
57
1
D:107-132
26
1.10
ENST00000287820
10
ENSE00001798725
chr3:
12434113-12434251
139
PPARG_HUMAN
161-207
47
1
D:133-179
47
1.12a
ENST00000287820
12a
ENSE00001804058
chr3:
12447381-12447580
200
PPARG_HUMAN
207-273
67
1
D:179-245
67
1.13
ENST00000287820
13
ENSE00001676214
chr3:
12458203-12458653
451
PPARG_HUMAN
274-424
151
1
D:246-396 (gaps)
151
1.14e
ENST00000287820
14e
ENSE00001527068
chr3:
12475397-12475855
459
PPARG_HUMAN
424-505
82
1
D:396-477
82
[
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]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
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Label:
Sorry, no Info available
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
[
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Hetero
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Protein & NOT PROSITE
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Chain D
Chain E
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Chain G
Asymmetric Unit 1
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