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.
2KU1
Asym. Unit
Info
Asym.Unit (12.8 MB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
Models
(30 )
Title
:
DYNAMIC REGULATION OF ARCHAEAL PROTEASOME GATE OPENING AS STUDIED BY TROSY-NMR
Authors
:
T. L. Religa, R. Sprangers, L. E. Kay
Date
:
11 Feb 10 (Deposition) - 21 Apr 10 (Release) - 21 Apr 10 (Revision)
Method
:
SOLUTION NMR
Resolution
:
NOT APPLICABLE
Chains
:
Asym. Unit : A,B,C,D,E,F,G (30 x)
Keywords
:
Proteasome, Proteolysis, Gating Residues, Cytoplasm, Hydrolase, Protease, Threonine Protease
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. L. Religa, R. Sprangers, L. E. Kay
Dynamic Regulation Of Archaeal Proteasome Gate Opening As Studied By Trosy Nmr.
Science V. 328 98 2010
[
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 in "Model" view)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 14)
Info
All PROSITE Patterns/Profiles
1: PROTEASOME_ALPHA_1 (A:8-30,B:8-30,C:8-30,D:8-30,E:8-30...)
2: PROTEASOME_ALPHA_2 (A:23-233,B:23-233,C:23-233,D:23-23...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PROTEASOME_ALPHA_1
PS00388
Proteasome alpha-type subunits signature.
PSA_THEAC
8-30
7
A:8-30
B:8-30
C:8-30
D:8-30
E:8-30
F:8-30
G:8-30
2
PROTEASOME_ALPHA_2
PS51475
Proteasome alpha-type subunit profile.
PSA_THEAC
23-233
7
A:23-233
B:23-233
C:23-233
D:23-233
E:23-233
F:23-233
G:23-233
[
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
(1, 7)
Info
All SCOP Domains
1a: SCOP_d2ku1a_ (A:)
1b: SCOP_d2ku1b_ (B:)
1c: SCOP_d2ku1c_ (C:)
1d: SCOP_d2ku1d_ (D:)
1e: SCOP_d2ku1e_ (E:)
1f: SCOP_d2ku1f_ (F:)
1g: SCOP_d2ku1g_ (G:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ntn hydrolase-like
(356)
Superfamily
:
N-terminal nucleophile aminohydrolases (Ntn hydrolases)
(352)
Family
:
Proteasome subunits
(222)
Protein domain
:
automated matches
(78)
Thermoplasma acidophilum [TaxId: 2303]
(7)
1a
d2ku1a_
A:
1b
d2ku1b_
B:
1c
d2ku1c_
C:
1d
d2ku1d_
D:
1e
d2ku1e_
E:
1f
d2ku1f_
F:
1g
d2ku1g_
G:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(2, 14)
Info
all PFAM domains
1a: PFAM_Proteasome_2ku1G01 (G:31-216)
1b: PFAM_Proteasome_2ku1G02 (G:31-216)
1c: PFAM_Proteasome_2ku1G03 (G:31-216)
1d: PFAM_Proteasome_2ku1G04 (G:31-216)
1e: PFAM_Proteasome_2ku1G05 (G:31-216)
1f: PFAM_Proteasome_2ku1G06 (G:31-216)
1g: PFAM_Proteasome_2ku1G07 (G:31-216)
2a: PFAM_Proteasome_A_N_2ku1G08 (G:8-30)
2b: PFAM_Proteasome_A_N_2ku1G09 (G:8-30)
2c: PFAM_Proteasome_A_N_2ku1G10 (G:8-30)
2d: PFAM_Proteasome_A_N_2ku1G11 (G:8-30)
2e: PFAM_Proteasome_A_N_2ku1G12 (G:8-30)
2f: PFAM_Proteasome_A_N_2ku1G13 (G:8-30)
2g: PFAM_Proteasome_A_N_2ku1G14 (G:8-30)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
NTN
(93)
Family
:
Proteasome
(36)
Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165)
(8)
1a
Proteasome-2ku1G01
G:31-216
1b
Proteasome-2ku1G02
G:31-216
1c
Proteasome-2ku1G03
G:31-216
1d
Proteasome-2ku1G04
G:31-216
1e
Proteasome-2ku1G05
G:31-216
1f
Proteasome-2ku1G06
G:31-216
1g
Proteasome-2ku1G07
G:31-216
Clan
:
no clan defined [family: Proteasome_A_N]
(20)
Family
:
Proteasome_A_N
(20)
Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165)
(8)
2a
Proteasome_A_N-2ku1G08
G:8-30
2b
Proteasome_A_N-2ku1G09
G:8-30
2c
Proteasome_A_N-2ku1G10
G:8-30
2d
Proteasome_A_N-2ku1G11
G:8-30
2e
Proteasome_A_N-2ku1G12
G:8-30
2f
Proteasome_A_N-2ku1G13
G:8-30
2g
Proteasome_A_N-2ku1G14
G:8-30
[
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
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 (12.8 MB)
Header - Asym.Unit
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
2KU1
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
