PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
1OR3
Asym. Unit
Info
Asym.Unit (31 KB)
Biol.Unit 1 (28 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
APOLIPOPROTEIN E3 (APOE3), TRIGONAL TRUNCATION MUTANT 165
Authors
:
B. Rupp, B. W. Segelke
Date
:
01 Dec 98 (Deposition) - 24 May 00 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.73
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Lipid Transport, Heparin-Binding, Plasma Protein, Hdl, Vldl, Lipid Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. W. Segelke, M. Forstner, M. Knapp, S. D. Trakhanov, S. Parkin, Y. M. Newhouse, H. D. Bellamy, K. H. Weisgraber, B. Rupp
Conformational Flexibility In The Apolipoprotein E Amino-Terminal Domain Structure Determined From Three New Crystal Forms: Implications For Lipid Binding.
Protein Sci. V. 9 886 2000
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(0, 0)
Info
All Hetero Components
View:
Select:
Label:
Sorry, no Info available
[
close Hetero component info
]
Sites
(0, 0)
Info
All Sites
View:
Select:
Label:
Sorry, no Info available
[
close Site info
]
SAPs(SNPs)/Variants
(20, 20)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_042734 (R25C, chain A, )
02: VAR_000647 (L28P, chain A, )
03: VAR_000648 (T42A, chain A, )
04: VAR_014114 (Q46H, chain A, )
05: VAR_000649 (Q81K, chain A, )
06: VAR_000651 (A99T, chain A, )
07: VAR_016789 (A106V, chain A, )
08: VAR_000652 (C112R, chain A, )
09: VAR_000653 (G127D, chain A, )
10: VAR_000655 (R134Q, chain A, )
11: VAR_000657 (R136C, chain A, )
12: VAR_000656 (R136S, chain A, )
13: VAR_000658 (R142C, chain A, )
14: VAR_000659 (R145C, chain A, )
15: VAR_000660 (R145H, chain A, )
16: VAR_042735 (R145P, chain A, )
17: VAR_000662 (K146E, chain A, )
18: VAR_000661 (K146Q, chain A, )
19: VAR_000663 (A152P, chain A, )
20: VAR_000664 (R158C, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_042734
R
43
C
APOE_HUMAN
Disease (LPG)
---
A
R
25
C
02
UniProt
VAR_000647
L
46
P
APOE_HUMAN
Polymorphism
769452
A
L
28
P
03
UniProt
VAR_000648
T
60
A
APOE_HUMAN
Polymorphism
28931576
A
T
42
A
04
UniProt
VAR_014114
Q
64
H
APOE_HUMAN
Polymorphism
---
A
Q
46
H
05
UniProt
VAR_000649
Q
99
K
APOE_HUMAN
Unclassified
---
A
Q
81
K
06
UniProt
VAR_000651
A
117
T
APOE_HUMAN
Polymorphism
28931577
A
A
99
T
07
UniProt
VAR_016789
A
124
V
APOE_HUMAN
Unclassified
---
A
A
106
V
08
UniProt
VAR_000652
C
130
R
APOE_HUMAN
Disease (HLPP3)
429358
A
C
112
R
09
UniProt
VAR_000653
G
145
D
APOE_HUMAN
Unclassified
---
A
G
127
D
10
UniProt
VAR_000655
R
152
Q
APOE_HUMAN
Polymorphism
28931578
A
R
134
Q
11
UniProt
VAR_000657
R
154
C
APOE_HUMAN
Disease (HLPP3)
---
A
R
136
C
12
UniProt
VAR_000656
R
154
S
APOE_HUMAN
Disease (HLPP3)
---
A
R
136
S
13
UniProt
VAR_000658
R
160
C
APOE_HUMAN
Disease (HLPP3)
---
A
R
142
C
14
UniProt
VAR_000659
R
163
C
APOE_HUMAN
Disease (HLPP3)
769455
A
R
145
C
15
UniProt
VAR_000660
R
163
H
APOE_HUMAN
Unclassified
---
A
R
145
H
16
UniProt
VAR_042735
R
163
P
APOE_HUMAN
Disease (LPG)
---
A
R
145
P
17
UniProt
VAR_000662
K
164
E
APOE_HUMAN
Disease (HLPP3)
---
A
K
146
E
18
UniProt
VAR_000661
K
164
Q
APOE_HUMAN
Disease (HLPP3)
---
A
K
146
Q
19
UniProt
VAR_000663
A
170
P
APOE_HUMAN
Unclassified
---
A
A
152
P
20
UniProt
VAR_000664
R
176
C
APOE_HUMAN
Disease (HLPP3)
7412
A
R
158
C
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(2, 2)
Info
All Exons
Exon 1.3 (A:22-61)
Exon 1.4d (A:61-164 (gaps))
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.2c/1.3
2: Boundary 1.3/1.4d
3: Boundary 1.4d/-
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
ENST00000252486
1a
ENSE00001815473
chr19:
45408956-45409098
143
APOE_HUMAN
-
0
0
-
-
1.2c
ENST00000252486
2c
ENSE00001678742
chr19:
45409859-45409924
66
APOE_HUMAN
1-15
15
0
-
-
1.3
ENST00000252486
3
ENSE00000893952
chr19:
45411017-45411209
193
APOE_HUMAN
15-79
65
1
A:22-61
40
1.4d
ENST00000252486
4d
ENSE00000893954
chr19:
45411790-45412650
861
APOE_HUMAN
79-317
239
1
A:61-164 (gaps)
104
[
close EXON info
]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1or3a_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Four-helical up-and-down bundle
(308)
Superfamily
:
Apolipoprotein
(12)
Family
:
Apolipoprotein
(12)
Protein domain
:
Apolipoprotein E
(12)
Human (Homo sapiens), E3 [TaxId: 9606]
(7)
1a
d1or3a_
A:
[
close SCOP info
]
CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1or3A00 (A:22-164)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Four Helix Bundle (Hemerythrin (Met), subunit A)
(300)
Homologous Superfamily
:
Apolipoprotein (APOA1 / APOA4 / APOE FAMILY)
(15)
Human (Homo sapiens)
(12)
1a
1or3A00
A:22-164
[
close CATH info
]
Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_Apolipoprotein_1or3A01 (A:62-164)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Apolipoprotein]
(16)
Family
:
Apolipoprotein
(16)
Homo sapiens (Human)
(15)
1a
Apolipoprotein-1or3A01
A:62-164
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (31 KB)
Header - Asym.Unit
Biol.Unit 1 (28 KB)
Header - Biol.Unit 1
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
1OR3
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help