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.
4ZZG
Asym. Unit
Info
Asym.Unit (1008 KB)
Biol.Unit 1 (994 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
YEAST 20S PROTEASOME IN COMPLEX WITH BLM-PEP ACTIVATOR
Authors
:
J. Witkowska, P. Grudnik, P. Golik, G. Dubin, E. Jankowska
Date
:
22 May 15 (Deposition) - 01 Jun 16 (Release) - 01 Jun 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,1,2,3,4
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,1,2,3,4 (1x)
Keywords
:
20S Proteasome, Low-Molecular Mass Activators, Allosteric Regulation, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Witkowska, R. Rostankowski, G. Dubin, P. Grudnik, P. Golik, D. Borek, Z. Otwinowski, E. Jankowska
Crystal Structure Revealed The Common Place Of Binding Of Low-Molecular Mass Activators With The 20S Proteasome
To Be Published
[
close entry info
]
Hetero Components
(4, 43)
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: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
2j: 1,2-ETHANEDIOL (EDOj)
2k: 1,2-ETHANEDIOL (EDOk)
2l: 1,2-ETHANEDIOL (EDOl)
2m: 1,2-ETHANEDIOL (EDOm)
2n: 1,2-ETHANEDIOL (EDOn)
2o: 1,2-ETHANEDIOL (EDOo)
2p: 1,2-ETHANEDIOL (EDOp)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
3g: GLYCEROL (GOLg)
4a: MAGNESIUM ION (MGa)
4b: MAGNESIUM ION (MGb)
4c: MAGNESIUM ION (MGc)
4d: MAGNESIUM ION (MGd)
4e: MAGNESIUM ION (MGe)
4f: MAGNESIUM ION (MGf)
4g: MAGNESIUM ION (MGg)
4h: MAGNESIUM ION (MGh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
12
Ligand/Ion
CHLORIDE ION
2
EDO
16
Ligand/Ion
1,2-ETHANEDIOL
3
GOL
7
Ligand/Ion
GLYCEROL
4
MG
8
Ligand/Ion
MAGNESIUM ION
[
close Hetero Component info
]
Sites
(24, 24)
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: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AD3 (SOFTWARE)
13: AD4 (SOFTWARE)
14: AD5 (SOFTWARE)
15: AD6 (SOFTWARE)
16: AD7 (SOFTWARE)
17: AD8 (SOFTWARE)
18: AD9 (SOFTWARE)
19: AE1 (SOFTWARE)
20: AE2 (SOFTWARE)
21: AE3 (SOFTWARE)
22: AE4 (SOFTWARE)
23: AE5 (SOFTWARE)
24: AE6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LYS A:98
binding site for residue CL A 301
02
AC2
SOFTWARE
HIS C:125 , GLY C:126
binding site for residue EDO C 302
03
AC3
SOFTWARE
ARG F:101 , LYS F:102 , ASP F:138 , LYS F:139 , GLU N:77
binding site for residue EDO F 301
04
AC4
SOFTWARE
LYS G:103 , GLU H:76 , TYR H:111
binding site for residue EDO G 301
05
AC5
SOFTWARE
LEU I:127 , GLY I:128
binding site for residue EDO I 302
06
AC6
SOFTWARE
MET L:97
binding site for residue GOL L 301
07
AC7
SOFTWARE
TYR L:90
binding site for residue EDO L 302
08
AC8
SOFTWARE
HOH M:401
binding site for residue GOL M 301
09
AC9
SOFTWARE
ASN M:-7
binding site for residue EDO M 302
10
AD1
SOFTWARE
GLN N:94
binding site for residue CL N 301
11
AD2
SOFTWARE
LYS N:202
binding site for residue MG N 303
12
AD3
SOFTWARE
SER O:153 , ILE O:154 , TYR O:155 , TYR O:166 , MET P:57
binding site for residue EDO O 302
13
AD4
SOFTWARE
TYR O:108 , ARG O:120 , HOH O:401 , HIS W:66
binding site for residue EDO O 303
14
AD5
SOFTWARE
ASN Q:70 , ASP Q:71 , GLN Q:96 , ASN X:63
binding site for residue GOL Q 301
15
AD6
SOFTWARE
LYS U:103 , GLU V:76
binding site for residue EDO U 301
16
AD7
SOFTWARE
TYR N:177 , TRP N:211 , ARG V:19 , GLY V:171 , TYR V:193 , GLU V:194
binding site for residue GOL V 203
17
AD8
SOFTWARE
TYR W:97 , EDO W:302
binding site for residue EDO W 301
18
AD9
SOFTWARE
LEU W:127 , GLY W:128 , EDO W:301
binding site for residue EDO W 302
19
AE1
SOFTWARE
ARG O:120
binding site for residue EDO W 303
20
AE2
SOFTWARE
MET Y:-1 , ASP Y:1
binding site for residue EDO Y 201
21
AE3
SOFTWARE
TYR 1:89 , TYR Z:90
binding site for residue GOL Z 302
22
AE4
SOFTWARE
LYS 2:7 , GLN 2:117
binding site for residue CL 2 301
23
AE5
SOFTWARE
LYS 2:202
binding site for residue CL 2 302
24
AE6
SOFTWARE
THR 2:196 , THR 2:199
binding site for residue EDO 2 304
[
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
Chain L
Chain M
Chain N
Chain O
Chain P
Chain Q
Chain R
Chain S
Chain T
Chain U
Chain V
Chain W
Chain X
Chain Y
Chain Z
Chain 1
Chain 2
Chain 3
Chain 4
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 (1008 KB)
Header - Asym.Unit
Biol.Unit 1 (994 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
4ZZG
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
