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3BQD
Asym. Unit
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Asym.Unit (53 KB)
Biol.Unit 1 (48 KB)
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(1)
Title
:
DOUBLING THE SIZE OF THE GLUCOCORTICOID RECEPTOR LIGAND BINDING POCKET BY DEACYLCORTIVAZOL
Authors
:
H. E. Xu
Date
:
20 Dec 07 (Deposition) - 15 Jan 08 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Glucocorticoid Receptor, Deacylcortivazol, Src1, Nuclear Receptor Coactivator 1 Isoform 1, Dimer Interface, Hormone Binding Pocket, Charge Clamp, Coactivator, Alternative Initiation, Alternative Splicing, Chromatin Regulator, Cytoplasm, Disease Mutation, Dna-Binding, Lipid-Binding, Metal-Binding, Nucleus, Phosphoprotein, Polymorphism, Pseudohermaphroditism, Steroid-Binding, Transcription, Transcription Regulation, Ubl Conjugation, Zinc, Zinc- Finger, Acyltransferase, Chromosomal Rearrangement, Proto- Oncogene, Transferase, Protein Binding
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Suino-Powell, Y. Xu, C. Zhang, Y. G. Tao, W. D. Tolbert, S. S. Simons, H. E. Xu
Doubling The Size Of The Glucocorticoid Receptor Ligand Binding Pocket By Deacylcortivazol.
Mol. Cell. Biol. V. 28 1915 2008
(for further references see the
PDB file header
)
[
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: 1-[(1R,2R,3AS,3BS,10AR,10BS,11S,12... (DAYa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
DAY
1
Ligand/Ion
1-[(1R,2R,3AS,3BS,10AR,10BS,11S,12AS)-1,11-DIHYDROXY-2,5,10A,12A-TETRAMETHYL-7-PHENYL-1,2,3,3A,3B,7,10,10A,10B,11,12,12A-DODECAHYDROCYCLOPENTA[5,6]NAPHTHO[1,2-F]INDAZOL-1-YL]-2-HYDROXYETHANONE
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Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LEU A:563 , ASN A:564 , LEU A:566 , GLY A:567 , GLN A:570 , MET A:601 , MET A:604 , ALA A:605 , ALA A:607 , LEU A:608 , ARG A:611 , PHE A:623 , GLN A:642 , LEU A:732 , TYR A:735 , CYS A:736 , THR A:739 , ILE A:747
BINDING SITE FOR RESIDUE DAY A 301
[
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]
SAPs(SNPs)/Variants
(9, 9)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_015632 (I559N, chain A, )
2: VAR_025014 (V571A, chain A, )
3: VAR_004676 (D641V, chain A, )
4: VAR_013473 (G679S, chain A, )
5: VAR_004677 (V729I, chain A, )
6: VAR_071935 (F737L, chain A, )
7: VAR_015633 (I747M, chain A, )
8: VAR_004678 (L753F, chain A, )
9: VAR_071936 (L773P, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_015632
I
559
N
GCR_HUMAN
Disease (GCRES)
---
A
I
559
N
2
UniProt
VAR_025014
V
571
A
GCR_HUMAN
Unclassified
---
A
V
571
A
3
UniProt
VAR_004676
D
641
V
GCR_HUMAN
Disease (GCRES)
---
A
D
641
V
4
UniProt
VAR_013473
G
679
S
GCR_HUMAN
Disease (GCRES)
---
A
G
679
S
5
UniProt
VAR_004677
V
729
I
GCR_HUMAN
Disease (GCRES)
---
A
V
729
I
6
UniProt
VAR_071935
F
737
L
GCR_HUMAN
Disease (GCCR)
---
A
F
737
L
7
UniProt
VAR_015633
I
747
M
GCR_HUMAN
Disease (GCRES)
---
A
I
747
M
8
UniProt
VAR_004678
L
753
F
GCR_HUMAN
Unclassified
---
A
L
753
F
9
UniProt
VAR_071936
L
773
P
GCR_HUMAN
Disease (GCCR)
---
A
L
773
P
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
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]
Exons
(6, 6)
Info
All Exons
Exon 1.26b (B:741-751)
Exon 2.16b (A:525-583)
Exon 2.17 (A:583-631)
Exon 2.18 (A:631-675)
Exon 2.20 (A:675-727)
Exon 2.21e (A:728-777)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.24/1.26b
2: Boundary 1.26b/-
3: Boundary 2.15/2.16b
4: Boundary 2.16b/2.17
5: Boundary 2.17/2.18
6: Boundary 2.18/2.20
7: Boundary 2.20/2.21e
8: Boundary 2.21e/-
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
1.5c
ENST00000348332
5c
ENSE00001412482
chr2:
24807346-24807429
84
NCOA1_HUMAN
-
0
0
-
-
1.6b
ENST00000348332
6b
ENSE00001353786
chr2:
24866835-24866991
157
NCOA1_HUMAN
-
0
0
-
-
1.7a
ENST00000348332
7a
ENSE00002170964
chr2:
24881530-24881635
106
NCOA1_HUMAN
1-30
30
0
-
-
1.8
ENST00000348332
8
ENSE00001070983
chr2:
24888618-24888784
167
NCOA1_HUMAN
30-86
57
0
-
-
1.9
ENST00000348332
9
ENSE00001781523
chr2:
24896235-24896332
98
NCOA1_HUMAN
86-118
33
0
-
-
1.10
ENST00000348332
10
ENSE00001796214
chr2:
24905820-24905997
178
NCOA1_HUMAN
119-178
60
0
-
-
1.11
ENST00000348332
11
ENSE00001070993
chr2:
24914350-24914529
180
NCOA1_HUMAN
178-238
61
0
-
-
1.12
ENST00000348332
12
ENSE00001070995
chr2:
24916121-24916216
96
NCOA1_HUMAN
238-270
33
0
-
-
1.13
ENST00000348332
13
ENSE00001070992
chr2:
24920527-24920667
141
NCOA1_HUMAN
270-317
48
0
-
-
1.14
ENST00000348332
14
ENSE00001071000
chr2:
24927955-24928102
148
NCOA1_HUMAN
317-366
50
0
-
-
1.15a
ENST00000348332
15a
ENSE00001070985
chr2:
24929437-24930757
1321
NCOA1_HUMAN
366-806
441
0
-
-
1.16a
ENST00000348332
16a
ENSE00000808887
chr2:
24933800-24933980
181
NCOA1_HUMAN
807-867
61
0
-
-
1.17
ENST00000348332
17
ENSE00000808888
chr2:
24949458-24949575
118
NCOA1_HUMAN
867-906
40
0
-
-
1.18
ENST00000348332
18
ENSE00000808889
chr2:
24951177-24951345
169
NCOA1_HUMAN
906-962
57
0
-
-
1.19
ENST00000348332
19
ENSE00000808890
chr2:
24952370-24952684
315
NCOA1_HUMAN
963-1067
105
0
-
-
1.20
ENST00000348332
20
ENSE00000726392
chr2:
24962301-24962402
102
NCOA1_HUMAN
1068-1101
34
0
-
-
1.21
ENST00000348332
21
ENSE00000726395
chr2:
24964653-24965055
403
NCOA1_HUMAN
1102-1236
135
0
-
-
1.22
ENST00000348332
22
ENSE00000808891
chr2:
24974851-24975025
175
NCOA1_HUMAN
1236-1294
59
0
-
-
1.23
ENST00000348332
23
ENSE00000726401
chr2:
24980842-24981025
184
NCOA1_HUMAN
1294-1355
62
0
-
-
1.24
ENST00000348332
24
ENSE00000726404
chr2:
24985556-24985645
90
NCOA1_HUMAN
1356-1385
30
0
-
-
1.26b
ENST00000348332
26b
ENSE00001797482
chr2:
24991090-24993571
2482
NCOA1_HUMAN
1386-1441
56
1
B:741-751
11
2.9a
ENST00000394464
9a
ENSE00001816085
chr5:
142783265-142782776
490
GCR_HUMAN
-
0
0
-
-
2.12c
ENST00000394464
12c
ENSE00001171430
chr5:
142780417-142779221
1197
GCR_HUMAN
1-395
395
0
-
-
2.14a
ENST00000394464
14a
ENSE00001039522
chr5:
142693733-142693567
167
GCR_HUMAN
395-451
57
0
-
-
2.15
ENST00000394464
15
ENSE00000910346
chr5:
142689778-142689662
117
GCR_HUMAN
451-490
40
0
-
-
2.16b
ENST00000394464
16b
ENSE00001082914
chr5:
142680328-142680050
279
GCR_HUMAN
490-583
94
1
A:525-583
59
2.17
ENST00000394464
17
ENSE00001082913
chr5:
142678377-142678233
145
GCR_HUMAN
583-631
49
1
A:583-631
49
2.18
ENST00000394464
18
ENSE00001082912
chr5:
142675155-142675025
131
GCR_HUMAN
631-675
45
1
A:631-675
45
2.20
ENST00000394464
20
ENSE00001082911
chr5:
142662290-142662133
158
GCR_HUMAN
675-727
53
1
A:675-727
53
2.21e
ENST00000394464
21e
ENSE00001171419
chr5:
142661606-142657496
4111
GCR_HUMAN
728-777
50
1
A:728-777
50
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d3bqda_ (A:)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
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
:
Glucocorticoid receptor
(6)
Human (Homo sapiens) [TaxId: 9606]
(6)
1a
d3bqda_
A:
[
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]
CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_3bqdA00 (A:525-777)
View:
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Classes
(
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(
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Architectures
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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
3bqdA00
A:525-777
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Sorry, no Info available
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Nucleic
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