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3H52
Asym. Unit
Info
Asym.Unit (170 KB)
Biol.Unit 1 (82 KB)
Biol.Unit 2 (81 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE ANTAGONIST FORM OF HUMAN GLUCOCORTICOID RECEPTOR
Authors
:
G. A. Schoch, J. Benz, B. D'Arcy, M. Stihle, D. Burger, R. Thoma, A. Ruf
Date
:
21 Apr 09 (Deposition) - 01 Dec 09 (Release) - 05 Feb 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D,M,N
Biol. Unit 1: A,D,N (1x)
Biol. Unit 2: B,C,M (1x)
Keywords
:
Protein-Ligand Complex, Nuclear Receptor, Peptide Complex, Hormone Receptor 3, Hormone Receptor
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. A. Schoch, B. D'Arcy, M. Stihle, D. Burger, D. Bar, J. Benz, R. Thoma, A. Ruf
Molecular Switch In The Glucocorticoid Receptor: Active And Passive Antagonist Conformations
J. Mol. Biol. V. 395 568 2010
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Hetero Components
(2, 5)
Info
All Hetero Components
1a: 11-(4-DIMETHYLAMINO-PHENYL)-17-HYD... (486a)
1b: 11-(4-DIMETHYLAMINO-PHENYL)-17-HYD... (486b)
1c: 11-(4-DIMETHYLAMINO-PHENYL)-17-HYD... (486c)
1d: 11-(4-DIMETHYLAMINO-PHENYL)-17-HYD... (486d)
2a: GLYCEROL (GOLa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
486
4
Ligand/Ion
11-(4-DIMETHYLAMINO-PHENYL)-17-HYDROXY-13-METHYL-17-PROP-1-YNYL-1,2,6,7,8,11,12,13,14,15,16,17-DODECAHYDRO-CYCLOPENTA[A]PHENANTHREN-3-ONE
2
GOL
1
Ligand/Ion
GLYCEROL
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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
ASN A:564 , GLY A:567 , GLN A:570 , VAL A:571 , MET A:601 , ARG A:611 , GLN A:642 , LEU A:732 , TYR A:735 , MET A:752
BINDING SITE FOR RESIDUE 486 A 3
2
AC2
SOFTWARE
MET B:560 , LEU B:563 , ASN B:564 , GLY B:567 , GLY B:568 , GLN B:570 , VAL B:571 , ARG B:611 , MET B:639 , GLN B:642 , MET B:646 , TYR B:735 , LEU B:753
BINDING SITE FOR RESIDUE 486 B 1
3
AC3
SOFTWARE
HIS B:645 , GLU B:727 , ASN B:731
BINDING SITE FOR RESIDUE GOL B 778
4
AC4
SOFTWARE
LEU C:563 , GLY C:567 , GLN C:570 , MET C:604 , ARG C:611 , PHE C:623 , MET C:639 , PHE C:740
BINDING SITE FOR RESIDUE 486 C 4
5
AC5
SOFTWARE
LEU D:563 , ASN D:564 , GLY D:567 , GLN D:570 , VAL D:571 , MET D:601 , MET D:604 , ARG D:611 , PHE D:623 , MET D:639 , TYR D:735 , LEU D:753
BINDING SITE FOR RESIDUE 486 D 2
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SAPs(SNPs)/Variants
(9, 33)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_015632 (I559N, chain A/B/C/D, )
2: VAR_025014 (V571A, chain A/B/C/D, )
3: VAR_004676 (D641V, chain A/B/C/D, )
4: VAR_013473 (G679S, chain A/B/C/D, )
5: VAR_004677 (V729I, chain A/B/C/D, )
6: VAR_071935 (F737L, chain A/B/C/D, )
7: VAR_015633 (I747M, chain A/B, )
8: VAR_004678 (L753F, chain A/B/D, )
9: VAR_071936 (L773P, chain A/B/C/D, )
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/B/C/D
I
559
N
2
UniProt
VAR_025014
V
571
A
GCR_HUMAN
Unclassified
---
A/B/C/D
V
571
A
3
UniProt
VAR_004676
D
641
V
GCR_HUMAN
Disease (GCRES)
---
A/B/C/D
D
641
V
4
UniProt
VAR_013473
G
679
S
GCR_HUMAN
Disease (GCRES)
---
A/B/C/D
G
679
S
5
UniProt
VAR_004677
V
729
I
GCR_HUMAN
Disease (GCRES)
---
A/B/C/D
V
729
I
6
UniProt
VAR_071935
F
737
L
GCR_HUMAN
Disease (GCCR)
---
A/B/C/D
F
737
L
7
UniProt
VAR_015633
I
747
M
GCR_HUMAN
Disease (GCRES)
---
A/B
I
747
M
8
UniProt
VAR_004678
L
753
F
GCR_HUMAN
Unclassified
---
A/B/D
L
753
F
9
UniProt
VAR_071936
L
773
P
GCR_HUMAN
Disease (GCCR)
---
A/B/C/D
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:
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Label:
End label:
Sorry, no Info available
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Exons
(5, 20)
Info
All Exons
Exon 1.16b (A:526-583 | B:528-583 | C:527-583 ...)
Exon 1.17 (A:583-631 | B:583-631 | C:583-631 ...)
Exon 1.18 (A:631-675 | B:631-675 | C:631-675 ...)
Exon 1.20 (A:675-727 | B:675-727 | C:675-727 ...)
Exon 1.21e (A:728-776 (gaps) | B:728-776 | C:7...)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.15/1.16b
2: Boundary 1.16b/1.17
3: Boundary 1.17/1.18
4: Boundary 1.18/1.20
5: Boundary 1.20/1.21e
6: Boundary 1.21e/-
View:
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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
1.9a
ENST00000394464
9a
ENSE00001816085
chr5:
142783265-142782776
490
GCR_HUMAN
-
0
0
-
-
1.12c
ENST00000394464
12c
ENSE00001171430
chr5:
142780417-142779221
1197
GCR_HUMAN
1-395
395
0
-
-
1.14a
ENST00000394464
14a
ENSE00001039522
chr5:
142693733-142693567
167
GCR_HUMAN
395-451
57
0
-
-
1.15
ENST00000394464
15
ENSE00000910346
chr5:
142689778-142689662
117
GCR_HUMAN
451-490
40
0
-
-
1.16b
ENST00000394464
16b
ENSE00001082914
chr5:
142680328-142680050
279
GCR_HUMAN
490-583
94
4
A:526-583
B:528-583
C:527-583
D:530-583
58
56
57
54
1.17
ENST00000394464
17
ENSE00001082913
chr5:
142678377-142678233
145
GCR_HUMAN
583-631
49
4
A:583-631
B:583-631
C:583-631
D:583-631
49
49
49
49
1.18
ENST00000394464
18
ENSE00001082912
chr5:
142675155-142675025
131
GCR_HUMAN
631-675
45
4
A:631-675
B:631-675
C:631-675
D:631-675
45
45
45
45
1.20
ENST00000394464
20
ENSE00001082911
chr5:
142662290-142662133
158
GCR_HUMAN
675-727
53
4
A:675-727
B:675-727
C:675-727
D:675-727
53
53
53
53
1.21e
ENST00000394464
21e
ENSE00001171419
chr5:
142661606-142657496
4111
GCR_HUMAN
728-777
50
4
A:728-776 (gaps)
B:728-776
C:728-776 (gaps)
D:728-776 (gaps)
49
49
49
49
[
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SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d3h52a_ (A:)
1b: SCOP_d3h52b_ (B:)
1c: SCOP_d3h52c_ (C:)
1d: SCOP_d3h52d_ (D:)
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Protein Domains
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Organisms
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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
:
automated matches
(140)
Human (Homo sapiens) [TaxId: 9606]
(122)
1a
d3h52a_
A:
1b
d3h52b_
B:
1c
d3h52c_
C:
1d
d3h52d_
D:
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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
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Sorry, no Info available
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Chain C
Chain D
Chain M
Chain N
Asymmetric Unit 1
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Asym.Unit (170 KB)
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