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.
1WLZ
Asym. Unit
Info
Asym.Unit (68 KB)
Biol.Unit 1 (18 KB)
Biol.Unit 2 (17 KB)
Biol.Unit 3 (17 KB)
Biol.Unit 4 (17 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 DJBP FRAGMENT WHICH WAS OBTAINED BY LIMITED PROTEOLYSIS
Authors
:
K. Honbou, N. Suzuki, M. Horiuchi, T. Taira, T. Niki, H. Ariga, F. Inagaki
Date
:
01 Jul 04 (Deposition) - 23 Aug 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Ef-Hand Like, Unknown Function
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Honbou, N. Suzuki, M. Horiuchi, T. Taira, T. Niki, H. Ariga, F. Inagaki
Crystal Structure Of Djbp Fragment Which Was Obtained By Limited Proteolysis
To Be Published
(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
(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
(1, 8)
Info
All PROSITE Patterns/Profiles
1: EF_HAND_2 (-|-|-|-|-|-|-|-|-|-|-|-|A:245-280,...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
EF_HAND_2
PS50222
EF-hand calcium-binding domain profile.
EFCB6_HUMAN
70-105
172-207
297-332
403-438
439-474
504-539
634-669
741-776
847-882
883-918
964-999
1069-1104
1176-1211
1212-1247
1359-1394
1439-1469
1470-1501
8
-
-
-
-
-
-
-
-
-
-
-
-
A:245-280
B:245-280
C:245-280
D:245-280
A:281-311
B:281-310
C:281-311
D:281-311
-
-
-
[
close PROSITE info
]
Exons
(2, 8)
Info
All Exons
Exon 1.29a (A:227-285 | B:227-285 | C:229-285 ...)
Exon 1.30 (A:286-311 | B:286-310 | C:286-311 ...)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.27/1.29a
2: Boundary 1.29a/1.30
3: Boundary 1.30/1.31
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
1.1c
ENST00000262726
1c
ENSE00001561226
chr22:
44208157-44208048
110
EFCB6_HUMAN
-
0
0
-
-
1.2
ENST00000262726
2
ENSE00001408769
chr22:
44205011-44204875
137
EFCB6_HUMAN
-
0
0
-
-
1.4b
ENST00000262726
4b
ENSE00002181221
chr22:
44178205-44178060
146
EFCB6_HUMAN
1-47
47
0
-
-
1.5
ENST00000262726
5
ENSE00001680857
chr22:
44168983-44168772
212
EFCB6_HUMAN
47-117
71
0
-
-
1.6
ENST00000262726
6
ENSE00001713590
chr22:
44161273-44161185
89
EFCB6_HUMAN
118-147
30
0
-
-
1.7
ENST00000262726
7
ENSE00001596147
chr22:
44151712-44151646
67
EFCB6_HUMAN
147-169
23
0
-
-
1.8
ENST00000262726
8
ENSE00000656907
chr22:
44131873-44131737
137
EFCB6_HUMAN
170-215
46
0
-
-
1.9
ENST00000262726
9
ENSE00000656906
chr22:
44127691-44127579
113
EFCB6_HUMAN
215-253
39
0
-
-
1.10a
ENST00000262726
10a
ENSE00001150120
chr22:
44112852-44112728
125
EFCB6_HUMAN
253-294
42
0
-
-
1.11
ENST00000262726
11
ENSE00001313550
chr22:
44107503-44107355
149
EFCB6_HUMAN
295-344
50
0
-
-
1.12
ENST00000262726
12
ENSE00001297455
chr22:
44083461-44083351
111
EFCB6_HUMAN
344-381
38
0
-
-
1.13a
ENST00000262726
13a
ENSE00001318450
chr22:
44079735-44079627
109
EFCB6_HUMAN
381-417
37
0
-
-
1.14
ENST00000262726
14
ENSE00001297735
chr22:
44074043-44073876
168
EFCB6_HUMAN
418-473
56
0
-
-
1.15a
ENST00000262726
15a
ENSE00001328068
chr22:
44068185-44068126
60
EFCB6_HUMAN
474-493
20
0
-
-
1.16
ENST00000262726
16
ENSE00001045631
chr22:
44068013-44067853
161
EFCB6_HUMAN
494-547
54
0
-
-
1.17
ENST00000262726
17
ENSE00001186138
chr22:
44064925-44064752
174
EFCB6_HUMAN
547-605
59
0
-
-
1.18
ENST00000262726
18
ENSE00001045647
chr22:
44063152-44062984
169
EFCB6_HUMAN
605-661
57
0
-
-
1.19
ENST00000262726
19
ENSE00001045654
chr22:
44031096-44030982
115
EFCB6_HUMAN
662-700
39
0
-
-
1.20
ENST00000262726
20
ENSE00001045633
chr22:
44028118-44027985
134
EFCB6_HUMAN
700-744
45
0
-
-
1.21
ENST00000262726
21
ENSE00001045652
chr22:
44022559-44022327
233
EFCB6_HUMAN
745-822
78
0
-
-
1.22
ENST00000262726
22
ENSE00000880629
chr22:
44011802-44011706
97
EFCB6_HUMAN
822-854
33
0
-
-
1.23
ENST00000262726
23
ENSE00001275750
chr22:
44004480-44004362
119
EFCB6_HUMAN
855-894
40
0
-
-
1.24
ENST00000262726
24
ENSE00001186196
chr22:
43996143-43995949
195
EFCB6_HUMAN
894-959
66
0
-
-
1.25
ENST00000262726
25
ENSE00000880627
chr22:
43986109-43985954
156
EFCB6_HUMAN
959-1011
53
0
-
-
1.26
ENST00000262726
26
ENSE00000880626
chr22:
43976539-43976344
196
EFCB6_HUMAN
1011-1076
66
0
-
-
1.27
ENST00000262726
27
ENSE00000880625
chr22:
43972368-43972177
192
EFCB6_HUMAN
1077-1140
64
0
-
-
1.29a
ENST00000262726
29a
ENSE00001345507
chr22:
43950976-43950749
228
EFCB6_HUMAN
1141-1216
76
4
A:227-285
B:227-285
C:229-285
D:229-285
59
59
57
57
1.30
ENST00000262726
30
ENSE00000656896
chr22:
43936237-43936007
231
EFCB6_HUMAN
1217-1293
77
4
A:286-311
B:286-310
C:286-311
D:286-311
26
25
26
26
1.31
ENST00000262726
31
ENSE00001275683
chr22:
43933425-43933257
169
EFCB6_HUMAN
1294-1350
57
0
-
-
1.32
ENST00000262726
32
ENSE00000656894
chr22:
43930752-43930568
185
EFCB6_HUMAN
1350-1411
62
0
-
-
1.35
ENST00000262726
35
ENSE00001150176
chr22:
43926844-43926695
150
EFCB6_HUMAN
1412-1461
50
0
-
-
1.36d
ENST00000262726
36d
ENSE00001920361
chr22:
43924855-43924624
232
EFCB6_HUMAN
1462-1501
40
0
-
-
[
close EXON info
]
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1wlzb_ (B:)
1b: SCOP_d1wlzc_ (C:)
1c: SCOP_d1wlzd_ (D:)
2a: SCOP_d1wlza1 (A:229-311)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
EF Hand-like
(739)
Superfamily
:
EF-hand
(657)
Family
:
EF-hand modules in multidomain proteins
(29)
Protein domain
:
automated matches
(1)
Human (Homo sapiens) [TaxId: 9606]
(1)
1a
d1wlzb_
B:
1b
d1wlzc_
C:
1c
d1wlzd_
D:
Protein domain
:
DJ-1-binding protein, DJBP
(1)
Human (Homo sapiens) [TaxId: 9606]
(1)
2a
d1wlza1
A:229-311
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_EF_hand_6_1wlzD01 (D:234-277)
1b: PFAM_EF_hand_6_1wlzD02 (D:234-277)
1c: PFAM_EF_hand_6_1wlzD03 (D:234-277)
1d: PFAM_EF_hand_6_1wlzD04 (D:234-277)
2a: PFAM_DUF1880_1wlzD05 (D:278-311)
2b: PFAM_DUF1880_1wlzD06 (D:278-311)
2c: PFAM_DUF1880_1wlzD07 (D:278-311)
2d: PFAM_DUF1880_1wlzD08 (D:278-311)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
EF_hand
(270)
Family
:
EF_hand_6
(75)
Homo sapiens (Human)
(34)
1a
EF_hand_6-1wlzD01
D:234-277
1b
EF_hand_6-1wlzD02
D:234-277
1c
EF_hand_6-1wlzD03
D:234-277
1d
EF_hand_6-1wlzD04
D:234-277
Clan
:
no clan defined [family: DUF1880]
(1)
Family
:
DUF1880
(1)
Homo sapiens (Human)
(1)
2a
DUF1880-1wlzD05
D:278-311
2b
DUF1880-1wlzD06
D:278-311
2c
DUF1880-1wlzD07
D:278-311
2d
DUF1880-1wlzD08
D:278-311
[
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
Chain B
Chain C
Chain D
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 (68 KB)
Header - Asym.Unit
Biol.Unit 1 (18 KB)
Header - Biol.Unit 1
Biol.Unit 2 (17 KB)
Header - Biol.Unit 2
Biol.Unit 3 (17 KB)
Header - Biol.Unit 3
Biol.Unit 4 (17 KB)
Header - Biol.Unit 4
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
1WLZ
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help