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.
1G6W
Asym. Unit
Info
Asym.Unit (171 KB)
Biol.Unit 1 (82 KB)
Biol.Unit 2 (88 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 THE GLOBULAR REGION OF THE PRION PROTEIN URE2 FROM THE YEAST SACCAROMYCES CEREVISIAE
Authors
:
L. Bousset, H. Belrhali, J. Janin, R. Melki, S. Morera
Date
:
08 Nov 00 (Deposition) - 21 Feb 01 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Gst Superfamily, Structural Genomics
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. Bousset, H. Belrhali, J. Janin, R. Melki, S. Morera
Structure Of The Globular Region Of The Prion Protein Ure2 From The Yeast Saccharomyces Cerevisiae.
Structure V. 9 39 2001
(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
(2, 8)
Info
All PROSITE Patterns/Profiles
1: GST_NTER (A:112-196,B:112-196,C:112-196,D:11...)
2: GST_CTER (A:205-353,B:205-353,C:205-354,D:20...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GST_NTER
PS50404
Soluble glutathione S-transferase N-terminal domain profile.
URE2_YEAST
112-196
4
A:112-196
B:112-196
C:112-196
D:112-196
2
GST_CTER
PS50405
Soluble glutathione S-transferase C-terminal domain profile.
URE2_YEAST
205-354
4
A:205-353
B:205-353
C:205-354
D:205-354
[
close PROSITE info
]
Exons
(1, 4)
Info
All Exons
Exon 1.1 (A:100-353 (gaps) | B:97-353 (gaps)...)
View:
Select:
Label:
All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/-
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
1.1
YNL229C
1
YNL229C.1
XIV:220202-219138
1065
URE2_YEAST
1-354
354
4
A:100-353 (gaps)
B:97-353 (gaps)
C:100-354
D:96-354
254
257
255
259
[
close EXON info
]
SCOP Domains
(2, 8)
Info
All SCOP Domains
1a: SCOP_d1g6wa1 (A:201-353)
1b: SCOP_d1g6wb1 (B:201-353)
1c: SCOP_d1g6wc1 (C:201-354)
1d: SCOP_d1g6wd1 (D:201-354)
2a: SCOP_d1g6wa2 (A:100-200)
2b: SCOP_d1g6wb2 (B:97-200)
2c: SCOP_d1g6wc2 (C:100-200)
2d: SCOP_d1g6wd2 (D:96-200)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
GST C-terminal domain-like
(353)
Superfamily
:
GST C-terminal domain-like
(353)
Family
:
Glutathione S-transferase (GST), C-terminal domain
(263)
Protein domain
:
Yeast prion protein ure2p, nitrogen regulation fragment
(8)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(8)
1a
d1g6wa1
A:201-353
1b
d1g6wb1
B:201-353
1c
d1g6wc1
C:201-354
1d
d1g6wd1
D:201-354
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Thioredoxin fold
(994)
Superfamily
:
Thioredoxin-like
(992)
Family
:
Glutathione S-transferase (GST), N-terminal domain
(216)
Protein domain
:
Yeast prion protein ure2p, nitrogen regulation fragment
(8)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(8)
2a
d1g6wa2
A:100-200
2b
d1g6wb2
B:97-200
2c
d1g6wc2
C:100-200
2d
d1g6wd2
D:96-200
[
close SCOP info
]
CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1g6wA01 (A:100-196)
1b: CATH_1g6wB01 (B:100-196)
1c: CATH_1g6wC01 (C:100-196)
1d: CATH_1g6wD01 (D:100-196)
2a: CATH_1g6wA02 (A:197-353)
2b: CATH_1g6wB02 (B:197-352)
2c: CATH_1g6wC02 (C:197-352)
2d: CATH_1g6wD02 (D:197-352)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Glutaredoxin
(620)
Homologous Superfamily
:
Glutaredoxin
(617)
Baker's yeast (Saccharomyces cerevisiae)
(19)
1a
1g6wA01
A:100-196
1b
1g6wB01
B:100-196
1c
1g6wC01
C:100-196
1d
1g6wD01
D:100-196
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2
(267)
Homologous Superfamily
:
[code=1.20.1050.10, no name defined]
(249)
Baker's yeast (Saccharomyces cerevisiae)
(9)
2a
1g6wA02
A:197-353
2b
1g6wB02
B:197-352
2c
1g6wC02
C:197-352
2d
1g6wD02
D:197-352
[
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
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 (171 KB)
Header - Asym.Unit
Biol.Unit 1 (82 KB)
Header - Biol.Unit 1
Biol.Unit 2 (88 KB)
Header - Biol.Unit 2
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
1G6W
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help