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...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
2ODV
Asym. Unit
Info
Asym.Unit (44 KB)
Biol.Unit 1 (39 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF A FRAGMENT OF THE PLAKIN DOMAIN OF PLECTIN, CYS TO ALA MUTANT.
Authors
:
J. M. De Pereda
Date
:
27 Dec 06 (Deposition) - 13 Mar 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.05
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Plakin Domain, Spectrin Repeat, Cytoskeleton, Hemidesmosomes, Epidermolysis Bullosa, Structural Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Sonnenberg, A. M. Rojas, J. M. De Pereda
The Structure Of A Tandem Pair Of Spectrin Repeats Of Plectin Reveals A Modular Organization Of The Plakin Domain
J. Mol. Biol. V. 368 1379 2007
[
close entry info
]
Hetero Components
(1, 1)
Info
All Hetero Components
1a: S-1,2-PROPANEDIOL (PGOa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
PGO
1
Ligand/Ion
S-1,2-PROPANEDIOL
[
close Hetero Component info
]
Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLU A:416 , LYS A:427 , MET A:430 , GLU A:431
BINDING SITE FOR RESIDUE PGO A 1001
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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
(6, 6)
Info
All Exons
Exon 1.21 (A:303-342 (gaps))
Exon 1.22 (A:343-374)
Exon 1.23 (A:375-417)
Exon 1.24 (A:417-448)
Exon 1.25 (A:449-500)
Exon 1.26 (A:500-520)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.20b/1.21
2: Boundary 1.21/1.22
3: Boundary 1.22/1.23
4: Boundary 1.23/1.24
5: Boundary 1.24/1.25
6: Boundary 1.25/1.26
7: Boundary 1.26/1.27
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
1.6
ENST00000322810
6
ENSE00001244239
chr8:
145025044-145024352
693
PLEC_HUMAN
1-175
175
0
-
-
1.12
ENST00000322810
12
ENSE00001742500
chr8:
145012860-145012799
62
PLEC_HUMAN
175-195
21
0
-
-
1.14
ENST00000322810
14
ENSE00001685326
chr8:
145012408-145012319
90
PLEC_HUMAN
196-225
30
0
-
-
1.16
ENST00000322810
16
ENSE00001316545
chr8:
145011410-145011333
78
PLEC_HUMAN
226-251
26
0
-
-
1.17
ENST00000322810
17
ENSE00001741875
chr8:
145011239-145011147
93
PLEC_HUMAN
252-282
31
0
-
-
1.18c
ENST00000322810
18c
ENSE00001244172
chr8:
145010182-145010016
167
PLEC_HUMAN
283-338
56
0
-
-
1.19b
ENST00000322810
19b
ENSE00001244165
chr8:
145009481-145009366
116
PLEC_HUMAN
338-377
40
0
-
-
1.20b
ENST00000322810
20b
ENSE00001244160
chr8:
145009285-145009179
107
PLEC_HUMAN
377-412
36
0
-
-
1.21
ENST00000322810
21
ENSE00001244151
chr8:
145009097-145008978
120
PLEC_HUMAN
413-452
40
1
A:303-342 (gaps)
40
1.22
ENST00000322810
22
ENSE00001244144
chr8:
145008898-145008803
96
PLEC_HUMAN
453-484
32
1
A:343-374
32
1.23
ENST00000322810
23
ENSE00001244136
chr8:
145008613-145008486
128
PLEC_HUMAN
485-527
43
1
A:375-417
43
1.24
ENST00000322810
24
ENSE00001244129
chr8:
145008259-145008166
94
PLEC_HUMAN
527-558
32
1
A:417-448
32
1.25
ENST00000322810
25
ENSE00001244123
chr8:
145007519-145007365
155
PLEC_HUMAN
559-610
52
1
A:449-500
52
1.26
ENST00000322810
26
ENSE00001301489
chr8:
145007279-145006961
319
PLEC_HUMAN
610-716
107
1
A:500-520
21
1.27
ENST00000322810
27
ENSE00001244070
chr8:
145006880-145006803
78
PLEC_HUMAN
717-742
26
0
-
-
1.28
ENST00000322810
28
ENSE00002173555
chr8:
145006729-145006568
162
PLEC_HUMAN
743-796
54
0
-
-
1.29
ENST00000322810
29
ENSE00001244050
chr8:
145006402-145006298
105
PLEC_HUMAN
797-831
35
0
-
-
1.30
ENST00000322810
30
ENSE00001244041
chr8:
145006200-145006105
96
PLEC_HUMAN
832-863
32
0
-
-
1.31
ENST00000322810
31
ENSE00001244034
chr8:
145005827-145005702
126
PLEC_HUMAN
864-905
42
0
-
-
1.32
ENST00000322810
32
ENSE00001244024
chr8:
145004704-145004552
153
PLEC_HUMAN
906-956
51
0
-
-
1.33
ENST00000322810
33
ENSE00001244019
chr8:
145004466-145004312
155
PLEC_HUMAN
957-1008
52
0
-
-
1.34
ENST00000322810
34
ENSE00001244010
chr8:
145004230-145004104
127
PLEC_HUMAN
1008-1050
43
0
-
-
1.35
ENST00000322810
35
ENSE00001244001
chr8:
145003997-145003814
184
PLEC_HUMAN
1051-1112
62
0
-
-
1.36
ENST00000322810
36
ENSE00001315328
chr8:
145003739-145003582
158
PLEC_HUMAN
1112-1164
53
0
-
-
1.37
ENST00000322810
37
ENSE00001295392
chr8:
145003449-145003271
179
PLEC_HUMAN
1165-1224
60
0
-
-
1.38
ENST00000322810
38
ENSE00001319048
chr8:
145002160-145002022
139
PLEC_HUMAN
1224-1270
47
0
-
-
1.39
ENST00000322810
39
ENSE00001243956
chr8:
145001934-145001578
357
PLEC_HUMAN
1271-1389
119
0
-
-
1.40
ENST00000322810
40
ENSE00001243948
chr8:
145001503-145001420
84
PLEC_HUMAN
1390-1417
28
0
-
-
1.41a
ENST00000322810
41a
ENSE00001243936
chr8:
145001249-145001145
105
PLEC_HUMAN
1418-1452
35
0
-
-
1.42
ENST00000322810
42
ENSE00001243927
chr8:
145001050-145000952
99
PLEC_HUMAN
1453-1485
33
0
-
-
1.43
ENST00000322810
43
ENSE00001309447
chr8:
145000052-144996672
3381
PLEC_HUMAN
1486-2612
1127
0
-
-
1.44c
ENST00000322810
44c
ENSE00001244232
chr8:
144996563-144989321
7243
PLEC_HUMAN
2613-4684
2072
0
-
-
[
close EXON info
]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
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 (44 KB)
Header - Asym.Unit
Biol.Unit 1 (39 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
2ODV
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help