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Getting 'Exon' information from database.
1SO8
Asym. Unit
Info
Asym.Unit (39 KB)
Biol.Unit 1 (130 KB)
Biol.Unit 2 (258 KB)
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(1)
Title
:
ABETA-BOUND HUMAN ABAD STRUCTURE [ALSO KNOWN AS 3-HYDROXYACYL-COA DEHYDROGENASE TYPE II (TYPE II HADH), ENDOPLASMIC RETICULUM-ASSOCIATED AMYLOID BETA-PEPTIDE BINDING PROTEIN (ERAB)]
Authors
:
J. W. Lustbader, M. Cirilli, H. Wu
Date
:
13 Mar 04 (Deposition) - 11 May 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A
Biol. Unit 1: A (4x)
Biol. Unit 2: A (8x)
Keywords
:
Alcohol Dehydrogenase; Rossmann Fold; Abeta-Induced Distorsion, Oxidoreductase
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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)
Reference
:
J. W. Lustbader, M. Cirilli, C. Lin, H. W. Xu, K. Takuma, N. Wang, C. Caspersen, X. Chen, S. Pollak, M. Chaney, F. Trinchese, F. Gunn-Moore, L. F. Lue, D. G. Walker, P. Kuppusamy, Z. L. Zewier, O. Arancio, D. Stern, S. S. Yan, H. Wu
Abad Directly Links Abeta To Mitochondrial Toxicity In Alzheimer'S Disease.
Science V. 304 448 2004
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Hetero Components
(2, 3)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
2a: SODIUM ION (NAa)
2b: SODIUM ION (NAb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
1
Ligand/Ion
CHLORIDE ION
2
NA
2
Ligand/Ion
SODIUM ION
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
SER A:67 , GLU A:68 , LYS A:69
BINDING SITE FOR RESIDUE NA A 301
2
AC2
SOFTWARE
GLY A:17 , SER A:20 , HOH A:522 , HOH A:545 , HOH A:560 , HOH A:602
BINDING SITE FOR RESIDUE NA A 302
3
AC3
SOFTWARE
ALA A:154 , SER A:155 , GLY A:173 , ILE A:175 , VAL A:176 , HOH A:570
BINDING SITE FOR RESIDUE CL A 303
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SAPs(SNPs)/Variants
(3, 3)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_015987 (L122V, chain A, )
2: VAR_015988 (R130C, chain A, )
3: VAR_032093 (N247S, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_015987
L
122
V
HCD2_HUMAN
Disease (MHBD deficiency)
28935476
A
L
122
V
2
UniProt
VAR_015988
R
130
C
HCD2_HUMAN
Disease (MHBD deficiency)
28935475
A
R
130
C
3
UniProt
VAR_032093
N
247
S
HCD2_HUMAN
Disease (MHBD deficiency)
---
A
N
247
S
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: ADH_SHORT (A:155-183)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ADH_SHORT
PS00061
Short-chain dehydrogenases/reductases family signature.
HCD2_HUMAN
155-183
1
A:155-183
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Exons
(6, 6)
Info
All Exons
Exon 1.1a (A:6-9)
Exon 1.2 (A:10-64)
Exon 1.3a (A:65-119 (gaps))
Exon 1.4a (A:120-162)
Exon 1.5c (A:163-199)
Exon 1.6b (A:199-253 (gaps))
View:
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All Exon Boundaries
1: Boundary -/1.1a
2: Boundary 1.1a/1.2
3: Boundary 1.2/1.3a
4: Boundary 1.3a/1.4a
5: Boundary 1.4a/1.5c
6: Boundary 1.5c/1.6b
7: Boundary 1.6b/-
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
1.1a
ENST00000168216
1a
ENSE00001038851
X:53461320-53461266
55
HCD2_HUMAN
1-9
9
1
A:6-9
4
1.2
ENST00000168216
2
ENSE00000846304
X:53460833-53460669
165
HCD2_HUMAN
10-64
55
1
A:10-64
55
1.3a
ENST00000168216
3a
ENSE00000671344
X:53459359-53459195
165
HCD2_HUMAN
65-119
55
1
A:65-119 (gaps)
55
1.4a
ENST00000168216
4a
ENSE00000671345
X:53459064-53458936
129
HCD2_HUMAN
120-162
43
1
A:120-162
43
1.5c
ENST00000168216
5c
ENSE00000671346
X:53458854-53458746
109
HCD2_HUMAN
163-199
37
1
A:163-199
37
1.6b
ENST00000168216
6b
ENSE00000846303
X:53458542-53458206
337
HCD2_HUMAN
199-261
63
1
A:199-253 (gaps)
55
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SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1so8a_ (A:)
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)
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)
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)
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)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
NAD(P)-binding Rossmann-fold domains
(1604)
Superfamily
:
NAD(P)-binding Rossmann-fold domains
(1604)
Family
:
Tyrosine-dependent oxidoreductases
(503)
Protein domain
:
Type II 3-hydroxyacyl-CoA dehydrogenase
(6)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d1so8a_
A:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1so8A00 (A:6-253)
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)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Human (Homo sapiens)
(188)
1a
1so8A00
A:6-253
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_adh_short_1so8A01 (A:11-187)
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Clan
:
NADP_Rossmann
(1239)
Family
:
adh_short
(92)
Homo sapiens (Human)
(21)
1a
adh_short-1so8A01
A:11-187
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Chain A
Asymmetric Unit 1
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Show PDB file:
Asym.Unit (39 KB)
Header - Asym.Unit
Biol.Unit 1 (130 KB)
Header - Biol.Unit 1
Biol.Unit 2 (258 KB)
Header - Biol.Unit 2
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