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1A6Y
Asym. Unit
Info
Asym.Unit (54 KB)
Biol.Unit 1 (48 KB)
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(1)
Title
:
REVERBA ORPHAN NUCLEAR RECEPTOR/DNA COMPLEX
Authors
:
Q. Zhao, S. Khorasanizadeh, F. Rastinejad
Date
:
04 Mar 98 (Deposition) - 21 Oct 98 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Orphan Receptor, Nuclear Receptor, Dna-Binding, Reverb, Rev- Erb, Transcription Regulation, Transcription/Dna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Q. Zhao, S. Khorasanizadeh, Y. Miyoshi, M. A. Lazar, F. Rastinejad
Structural Elements Of An Orphan Nuclear Receptor-Dna Complex.
Mol. Cell V. 1 849 1998
(for further references see the
PDB file header
)
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Hetero Components
(2, 5)
Info
All Hetero Components
1a: 5-IODO-2'-DEOXYURIDINE-5'-MONOPHOS... (5IUa)
2a: ZINC ION (ZNa)
2b: ZINC ION (ZNb)
2c: ZINC ION (ZNc)
2d: ZINC ION (ZNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
5IU
1
Mod. Nucleotide
5-IODO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE
2
ZN
4
Ligand/Ion
ZINC ION
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
CYS A:101 , CYS A:104 , CYS A:118 , CYS A:121
BINDING SITE FOR RESIDUE ZN A 550
2
AC2
SOFTWARE
CYS A:137 , CYS A:143 , CYS A:153 , CYS A:156
BINDING SITE FOR RESIDUE ZN A 551
3
AC3
SOFTWARE
CYS B:101 , CYS B:104 , CYS B:118 , CYS B:121
BINDING SITE FOR RESIDUE ZN B 450
4
AC4
SOFTWARE
CYS B:137 , CYS B:143 , CYS B:153 , CYS B:156
BINDING SITE FOR RESIDUE ZN B 451
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(2, 3)
Info
All PROSITE Patterns/Profiles
1: NUCLEAR_REC_DBD_2 (B:98-173)
2: NUCLEAR_REC_DBD_1 (A:101-127,B:101-127)
;
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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.
NR1D1_HUMAN
129-205
1
B:98-173
2
NUCLEAR_REC_DBD_1
PS00031
Nuclear hormones receptors DNA-binding region signature.
NR1D1_HUMAN
132-158
2
A:101-127
B:101-127
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Exons
(3, 6)
Info
All Exons
Exon 1.3 (A:99-122 | B:96-122)
Exon 1.4 (A:123-170 | B:123-170)
Exon 1.5 (A:170-175 | B:170-178)
View:
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All Exon Boundaries
1: Boundary 1.2/1.3
2: Boundary 1.3/1.4
3: Boundary 1.4/1.5
4: Boundary 1.5/1.6
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
ENST00000246672
1
ENSE00001058054
chr17:
38256978-38256317
662
NR1D1_HUMAN
1-11
11
0
-
-
1.2
ENST00000246672
2
ENSE00000863344
chr17:
38253656-38253318
339
NR1D1_HUMAN
11-124
114
0
-
-
1.3
ENST00000246672
3
ENSE00000863343
chr17:
38253032-38252944
89
NR1D1_HUMAN
124-153
30
2
A:99-122
B:96-122
24
27
1.4
ENST00000246672
4
ENSE00001718983
chr17:
38252840-38252696
145
NR1D1_HUMAN
154-202
49
2
A:123-170
B:123-170
49
49
1.5
ENST00000246672
5
ENSE00000720300
chr17:
38252340-38251697
644
NR1D1_HUMAN
202-416
215
2
A:170-175
B:170-178
6
9
1.6
ENST00000246672
6
ENSE00000720296
chr17:
38251373-38251188
186
NR1D1_HUMAN
417-478
62
0
-
-
1.7
ENST00000246672
7
ENSE00000863341
chr17:
38250375-38250165
211
NR1D1_HUMAN
479-549
71
0
-
-
1.8
ENST00000246672
8
ENSE00001310461
chr17:
38249535-38249040
496
NR1D1_HUMAN
549-614
66
0
-
-
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SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1a6ya_ (A:)
1b: SCOP_d1a6yb_ (B:)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Small proteins
(3458)
Fold
:
Glucocorticoid receptor-like (DNA-binding domain)
(292)
Superfamily
:
Glucocorticoid receptor-like (DNA-binding domain)
(292)
Family
:
Nuclear receptor
(49)
Protein domain
:
Orphan nuclear receptor reverb DNA-binding domain
(3)
Human (Homo sapiens) [TaxId: 9606]
(3)
1a
d1a6ya_
A:
1b
d1a6yb_
B:
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1a6yA00 (A:99-175)
1b: CATH_1a6yB00 (B:96-178)
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Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Erythroid Transcription Factor GATA-1; Chain A
(61)
Homologous Superfamily
:
Erythroid Transcription Factor GATA-1, subunit A
(61)
[unclassified]
(30)
1a
1a6yA00
A:99-175
1b
1a6yB00
B:96-178
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Pfam Domains
(0, 0)
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all PFAM domains
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Chain D
Asymmetric Unit 1
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Asym.Unit (54 KB)
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