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.
4BMJ
Asym. Unit
Info
Asym.Unit (256 KB)
Biol.Unit 1 (26 KB)
Biol.Unit 10 (27 KB)
Biol.Unit 11 (26 KB)
Biol.Unit 2 (26 KB)
Biol.Unit 3 (27 KB)
Biol.Unit 4 (24 KB)
Biol.Unit 5 (25 KB)
Biol.Unit 6 (24 KB)
Biol.Unit 7 (25 KB)
Biol.Unit 8 (27 KB)
Biol.Unit 9 (27 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
STRUCTURE OF THE UBZ1AND2 TANDEM OF THE UBIQUITIN-BINDING ADAPTOR PROTEIN TAX1BP1
Authors
:
M. A. Ceregido, M. Spinola-Amilibia, L. Buts, J. Rivera, J. Bravo, N. A. J. Van Nuland
Date
:
09 May 13 (Deposition) - 20 Nov 13 (Release) - 05 Feb 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.75
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: E (1x)
Biol. Unit 6: F (1x)
Biol. Unit 7: G (1x)
Biol. Unit 8: H (1x)
Biol. Unit 9: I (1x)
Biol. Unit 10: J (1x)
Biol. Unit 11: K (1x)
Keywords
:
Apoptosis, Ubz Domains, Ubiquitin, Inflammation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. A. Ceregido, M. Spinola-Amilibia, L. Buts, J. Rivera-Torres, A. Garcia-Pino, J. Bravo, N. A. J. Van Nuland
The Structure Of Tax1Bp1 Ubz1 + 2 Provides Insight Into Target Specificity And Adaptability
J. Mol. Biol. V. 426 674 2014
[
close entry info
]
Hetero Components
(2, 34)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
1h: CHLORIDE ION (CLh)
1i: CHLORIDE ION (CLi)
1j: CHLORIDE ION (CLj)
1k: CHLORIDE ION (CLk)
1l: CHLORIDE ION (CLl)
2a: ZINC ION (ZNa)
2b: ZINC ION (ZNb)
2c: ZINC ION (ZNc)
2d: ZINC ION (ZNd)
2e: ZINC ION (ZNe)
2f: ZINC ION (ZNf)
2g: ZINC ION (ZNg)
2h: ZINC ION (ZNh)
2i: ZINC ION (ZNi)
2j: ZINC ION (ZNj)
2k: ZINC ION (ZNk)
2l: ZINC ION (ZNl)
2m: ZINC ION (ZNm)
2n: ZINC ION (ZNn)
2o: ZINC ION (ZNo)
2p: ZINC ION (ZNp)
2q: ZINC ION (ZNq)
2r: ZINC ION (ZNr)
2s: ZINC ION (ZNs)
2t: ZINC ION (ZNt)
2u: ZINC ION (ZNu)
2v: ZINC ION (ZNv)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
12
Ligand/Ion
CHLORIDE ION
2
ZN
22
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(34, 34)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
CYS A:10 , CYS A:13 , HIS A:29 , HIS A:33
BINDING SITE FOR RESIDUE ZN A 101
02
AC2
SOFTWARE
CYS A:37 , CYS A:40 , HIS A:56 , HIS A:60
BINDING SITE FOR RESIDUE ZN A 102
03
AC3
SOFTWARE
ARG A:55
BINDING SITE FOR RESIDUE CL A 103
04
AC4
SOFTWARE
CYS B:10 , CYS B:13 , HIS B:29 , HIS B:33
BINDING SITE FOR RESIDUE ZN B 101
05
AC5
SOFTWARE
CYS B:37 , CYS B:40 , HIS B:56 , HIS B:60
BINDING SITE FOR RESIDUE ZN B 102
06
AC6
SOFTWARE
ARG B:55
BINDING SITE FOR RESIDUE CL B 103
07
AC7
SOFTWARE
HIS B:60
BINDING SITE FOR RESIDUE CL B 104
08
AC8
SOFTWARE
CYS C:10 , CYS C:13 , HIS C:29 , HIS C:33
BINDING SITE FOR RESIDUE ZN C 101
09
AC9
SOFTWARE
CYS C:37 , CYS C:40 , HIS C:56 , HIS C:60
BINDING SITE FOR RESIDUE ZN C 102
10
BC1
SOFTWARE
ARG C:55
BINDING SITE FOR RESIDUE CL C 103
11
BC2
SOFTWARE
CYS D:10 , CYS D:13 , HIS D:29 , HIS D:33
BINDING SITE FOR RESIDUE ZN D 101
12
BC3
SOFTWARE
CYS D:37 , CYS D:40 , HIS D:56 , HIS D:60
BINDING SITE FOR RESIDUE ZN D 102
13
BC4
SOFTWARE
ARG D:55
BINDING SITE FOR RESIDUE CL D 103
14
BC5
SOFTWARE
CYS E:10 , CYS E:13 , HIS E:29 , HIS E:33
BINDING SITE FOR RESIDUE ZN E 101
15
BC6
SOFTWARE
CYS E:37 , CYS E:40 , HIS E:56 , HIS E:60
BINDING SITE FOR RESIDUE ZN E 102
16
BC7
SOFTWARE
GLN E:51 , ARG E:55 , HOH E:2004
BINDING SITE FOR RESIDUE CL E 103
17
BC8
SOFTWARE
CYS F:10 , CYS F:13 , HIS F:29 , HIS F:33
BINDING SITE FOR RESIDUE ZN F 101
18
BC9
SOFTWARE
CYS F:37 , CYS F:40 , HIS F:56 , HIS F:60
BINDING SITE FOR RESIDUE ZN F 102
19
CC1
SOFTWARE
ARG F:55
BINDING SITE FOR RESIDUE CL F 103
20
CC2
SOFTWARE
CYS G:10 , CYS G:13 , HIS G:29 , HIS G:33
BINDING SITE FOR RESIDUE ZN G 101
21
CC3
SOFTWARE
CYS G:37 , CYS G:40 , HIS G:56 , HIS G:60
BINDING SITE FOR RESIDUE ZN G 102
22
CC4
SOFTWARE
HOH F:2003 , ARG G:55
BINDING SITE FOR RESIDUE CL G 103
23
CC5
SOFTWARE
CYS H:10 , CYS H:13 , HIS H:29 , HIS H:33
BINDING SITE FOR RESIDUE ZN H 101
24
CC6
SOFTWARE
CYS H:37 , CYS H:40 , HIS H:56 , HIS H:60
BINDING SITE FOR RESIDUE ZN H 102
25
CC7
SOFTWARE
ARG H:55
BINDING SITE FOR RESIDUE CL H 103
26
CC8
SOFTWARE
CYS I:10 , CYS I:13 , HIS I:29 , HIS I:33
BINDING SITE FOR RESIDUE ZN I 101
27
CC9
SOFTWARE
CYS I:37 , CYS I:40 , HIS I:56 , HIS I:60
BINDING SITE FOR RESIDUE ZN I 102
28
DC1
SOFTWARE
ARG I:55
BINDING SITE FOR RESIDUE CL I 103
29
DC2
SOFTWARE
CYS J:10 , CYS J:13 , HIS J:29 , HIS J:33
BINDING SITE FOR RESIDUE ZN J 101
30
DC3
SOFTWARE
CYS J:37 , CYS J:40 , HIS J:56 , HIS J:60
BINDING SITE FOR RESIDUE ZN J 102
31
DC4
SOFTWARE
HOH I:2007 , GLN J:51 , HOH J:2007
BINDING SITE FOR RESIDUE CL J 103
32
DC5
SOFTWARE
CYS K:10 , CYS K:13 , HIS K:29 , HIS K:33
BINDING SITE FOR RESIDUE ZN K 101
33
DC6
SOFTWARE
CYS K:37 , CYS K:40 , HIS K:56 , HIS K:60
BINDING SITE FOR RESIDUE ZN K 102
34
DC7
SOFTWARE
ARG K:55
BINDING SITE FOR RESIDUE CL K 103
[
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
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
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
Chain B
Chain C
Chain D
Chain E
Chain F
Chain G
Chain H
Chain I
Chain J
Chain K
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 (256 KB)
Header - Asym.Unit
Biol.Unit 1 (26 KB)
Header - Biol.Unit 1
Biol.Unit 10 (27 KB)
Header - Biol.Unit 10
Biol.Unit 11 (26 KB)
Header - Biol.Unit 11
Biol.Unit 2 (26 KB)
Header - Biol.Unit 2
Biol.Unit 3 (27 KB)
Header - Biol.Unit 3
Biol.Unit 4 (24 KB)
Header - Biol.Unit 4
Biol.Unit 5 (25 KB)
Header - Biol.Unit 5
Biol.Unit 6 (24 KB)
Header - Biol.Unit 6
Biol.Unit 7 (25 KB)
Header - Biol.Unit 7
Biol.Unit 8 (27 KB)
Header - Biol.Unit 8
Biol.Unit 9 (27 KB)
Header - Biol.Unit 9
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
4BMJ
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help