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1RKH
Asym. Unit
Info
Asym.Unit (49 KB)
Biol.Unit 1 (44 KB)
Biol.Unit 2 (85 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE RAT VITAMIN D RECEPTOR LIGAND BINDING DOMAIN COMPLEXED WITH 2AM20R AND A SYNTHETIC PEPTIDE CONTAINING THE NR2 BOX OF DRIP 205
Authors
:
J. L. Vanhooke, M. M. Benning, C. B. Bauer, J. W. Pike, H. F Deluca
Date
:
21 Nov 03 (Deposition) - 13 Apr 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.28
Chains
:
Asym. Unit : A,C
Biol. Unit 1: A,C (1x)
Biol. Unit 2: A,C (2x)
Keywords
:
Nuclear Receptor-Ligand Complex, Nuclear Receptor- Coactivator Interactions, Hormone/Growth Factor Receptor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. L. Vanhooke, M. M. Benning, C. B. Bauer, J. W. Pike, H. F. Deluca
Molecular Structure Of The Rat Vitamin D Receptor Ligand Binding Domain Complexed With 2-Carbon-Substituted Vitamin D(3) Hormone Analogues And A Lxxll-Containing Coactivator Peptide
Biochemistry V. 43 4101 2004
(for further references see the
PDB file header
)
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: 5-{2-[1-(5-HYDROXY-1,5-DIMETHYL-HE... (VD2a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
VD2
1
Ligand/Ion
5-{2-[1-(5-HYDROXY-1,5-DIMETHYL-HEXYL)-7A-METHYL-OCTAHYDRO-INDEN-4-YLIDENE]-ETHYLIDENE}-2-METHYL-CYCLOHEXANE-1,3-DIOL
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Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
TYR A:143 , VAL A:230 , SER A:233 , ARG A:270 , SER A:271 , SER A:274 , TRP A:282 , CYS A:284 , HIS A:301 , LEU A:305 , HIS A:393
BINDING SITE FOR RESIDUE VD2 A 500
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(0, 0)
Info
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Sorry, no Info available
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Exons
(1, 1)
Info
All Exons
Exon 1.17b (C:625-635)
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All Exon Boundaries
1: Boundary 1.16/1.17b
2: Boundary 1.17b/-
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
1.1
ENST00000300651
1
ENSE00001387933
chr17:
37607521-37607291
231
MED1_HUMAN
1-9
9
0
-
-
1.2
ENST00000300651
2
ENSE00001317542
chr17:
37604157-37604051
107
MED1_HUMAN
9-44
36
0
-
-
1.3
ENST00000300651
3
ENSE00001121901
chr17:
37599881-37599803
79
MED1_HUMAN
45-71
27
0
-
-
1.4
ENST00000300651
4
ENSE00001111436
chr17:
37596930-37596876
55
MED1_HUMAN
71-89
19
0
-
-
1.5
ENST00000300651
5
ENSE00001111460
chr17:
37596771-37596639
133
MED1_HUMAN
89-133
45
0
-
-
1.6
ENST00000300651
6
ENSE00001111451
chr17:
37595446-37595418
29
MED1_HUMAN
134-143
10
0
-
-
1.7
ENST00000300651
7
ENSE00001121873
chr17:
37590573-37590502
72
MED1_HUMAN
143-167
25
0
-
-
1.8
ENST00000300651
8
ENSE00001111420
chr17:
37588269-37588195
75
MED1_HUMAN
167-192
26
0
-
-
1.9
ENST00000300651
9
ENSE00001111416
chr17:
37587441-37587368
74
MED1_HUMAN
192-217
26
0
-
-
1.10
ENST00000300651
10
ENSE00001111428
chr17:
37584043-37583954
90
MED1_HUMAN
217-247
31
0
-
-
1.11
ENST00000300651
11
ENSE00001111422
chr17:
37580991-37580880
112
MED1_HUMAN
247-284
38
0
-
-
1.12
ENST00000300651
12
ENSE00001111425
chr17:
37580074-37579950
125
MED1_HUMAN
284-326
43
0
-
-
1.13
ENST00000300651
13
ENSE00001111423
chr17:
37579698-37579580
119
MED1_HUMAN
326-365
40
0
-
-
1.14
ENST00000300651
14
ENSE00001111421
chr17:
37576171-37575970
202
MED1_HUMAN
366-433
68
0
-
-
1.15
ENST00000300651
15
ENSE00001111430
chr17:
37571592-37571497
96
MED1_HUMAN
433-465
33
0
-
-
1.16
ENST00000300651
16
ENSE00001111419
chr17:
37571384-37571279
106
MED1_HUMAN
465-500
36
0
-
-
1.17b
ENST00000300651
17b
ENSE00001303897
chr17:
37566974-37562854
4121
MED1_HUMAN
500-1581
1082
1
C:625-635
11
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SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1rkha_ (A:)
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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
:
Vitamin D nuclear receptor
(37)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(15)
1a
d1rkha_
A:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1rkhA00 (A:123-422)
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Organisms
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Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Retinoid X Receptor
(409)
Homologous Superfamily
:
Retinoid X Receptor
(409)
Norway rat (Rattus norvegicus)
(18)
1a
1rkhA00
A:123-422
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_Hormone_recep_1rkhA01 (A:218-414)
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Clan
:
no clan defined [family: Hormone_recep]
(290)
Family
:
Hormone_recep
(290)
Rattus norvegicus (Rat)
(22)
1a
Hormone_recep-1rkhA01
A:218-414
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Asymmetric Unit 1
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Show PDB file:
Asym.Unit (49 KB)
Header - Asym.Unit
Biol.Unit 1 (44 KB)
Header - Biol.Unit 1
Biol.Unit 2 (85 KB)
Header - Biol.Unit 2
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