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.
1XYG
Asym. Unit
Info
Asym.Unit (239 KB)
Biol.Unit 1 (234 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
X-RAY STRUCTURE OF GENE PRODUCT FROM ARABIDOPSIS THALIANA AT2G19940
Authors
:
G. E. Wesenberg, G. N. Phillips Jr. , E. Bitto, C. A. Bingman, S. T. M. All Center For Eukaryotic Structural Genomics (Cesg)
Date
:
09 Nov 04 (Deposition) - 23 Nov 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.19
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Structural Genomics, Protein Structure Initiative, Psi, Center For Eukaryotic Structural Genomics, Cesg, At2G19940, Cath 3. 40. 50 Fold, Semialdehyde Dehydorgenase Family, Tetramer, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Center For Eukaryotic Structural Genomics
X-Ray Structure Of Gene Product From Arabidopsis Thaliana At2G19940
To Be Published
[
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, 4)
Info
All PROSITE Patterns/Profiles
1: ARGC (A:158-174,B:158-174,C:158-174,D:15...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ARGC
PS01224
N-acetyl-gamma-glutamyl-phosphate reductase active site.
ARGC_ARATH
200-216
4
A:158-174
B:158-174
C:158-174
D:158-174
[
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
(2, 8)
Info
All SCOP Domains
1a: SCOP_d1xyga2 (A:163-326)
1b: SCOP_d1xygb2 (B:163-326)
1c: SCOP_d1xygc2 (C:163-326)
1d: SCOP_d1xygd2 (D:163-326)
2a: SCOP_d1xyga1 (A:15-162,A:327-359)
2b: SCOP_d1xygb1 (B:15-162,B:327-359)
2c: SCOP_d1xygc1 (C:15-162,C:327-359)
2d: SCOP_d1xygd1 (D:15-162,D:327-359)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
FwdE/GAPDH domain-like
(188)
Superfamily
:
Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
(179)
Family
:
GAPDH-like
(99)
Protein domain
:
N-acetyl-gamma-glutamyl-phosphate reductase ArgC
(4)
Thale cress (Arabidopsis thaliana) [TaxId: 3702]
(2)
1a
d1xyga2
A:163-326
1b
d1xygb2
B:163-326
1c
d1xygc2
C:163-326
1d
d1xygd2
D:163-326
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
NAD(P)-binding Rossmann-fold domains
(1604)
Superfamily
:
NAD(P)-binding Rossmann-fold domains
(1604)
Family
:
Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
(179)
Protein domain
:
N-acetyl-gamma-glutamyl-phosphate reductase ArgC
(4)
Thale cress (Arabidopsis thaliana) [TaxId: 3702]
(2)
2a
d1xyga1
A:15-162,A:327-359
2b
d1xygb1
B:15-162,B:327-359
2c
d1xygc1
C:15-162,C:327-359
2d
d1xygd1
D:15-162,D:327-359
[
close SCOP info
]
CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1xygA02 (A:161-327)
1b: CATH_1xygB02 (B:161-327)
1c: CATH_1xygC02 (C:161-327)
1d: CATH_1xygD02 (D:161-327)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Dihydrodipicolinate Reductase; domain 2
(182)
Homologous Superfamily
:
Dihydrodipicolinate Reductase; domain 2
(178)
Thale cress (Arabidopsis thaliana)
(3)
1a
1xygA02
A:161-327
1b
1xygB02
B:161-327
1c
1xygC02
C:161-327
1d
1xygD02
D:161-327
[
close CATH info
]
Pfam Domains
(2, 8)
Info
all PFAM domains
1a: PFAM_Semialdhyde_dhC_1xygD01 (D:172-330)
1b: PFAM_Semialdhyde_dhC_1xygD02 (D:172-330)
1c: PFAM_Semialdhyde_dhC_1xygD03 (D:172-330)
1d: PFAM_Semialdhyde_dhC_1xygD04 (D:172-330)
2a: PFAM_Semialdhyde_dh_1xygD05 (D:18-155)
2b: PFAM_Semialdhyde_dh_1xygD06 (D:18-155)
2c: PFAM_Semialdhyde_dh_1xygD07 (D:18-155)
2d: PFAM_Semialdhyde_dh_1xygD08 (D:18-155)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
GADPH_aa-bio_dh
(59)
Family
:
Semialdhyde_dhC
(21)
Arabidopsis thaliana (Mouse-ear cress)
(2)
1a
Semialdhyde_dhC-1xygD01
D:172-330
1b
Semialdhyde_dhC-1xygD02
D:172-330
1c
Semialdhyde_dhC-1xygD03
D:172-330
1d
Semialdhyde_dhC-1xygD04
D:172-330
Clan
:
NADP_Rossmann
(1239)
Family
:
Semialdhyde_dh
(22)
Arabidopsis thaliana (Mouse-ear cress)
(2)
2a
Semialdhyde_dh-1xygD05
D:18-155
2b
Semialdhyde_dh-1xygD06
D:18-155
2c
Semialdhyde_dh-1xygD07
D:18-155
2d
Semialdhyde_dh-1xygD08
D:18-155
[
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 (239 KB)
Header - Asym.Unit
Biol.Unit 1 (234 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
1XYG
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help