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.
2A9K
Asym. Unit
Info
Asym.Unit (72 KB)
Biol.Unit 1 (66 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 C3BOT-NAD-RALA COMPLEX REVEALS A NOVEL TYPE OF ACTION OF A BACTERIAL EXOENZYME
Authors
:
A. Pautsch, M. Vogelsgesang, J. Trankle, C. Herrmann, K. Aktories
Date
:
12 Jul 05 (Deposition) - 11 Oct 05 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.73
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Exoenzyme C3, Bacterial Adp-Ribosyltransferase, Ral, Rho, Gdp- Binding, Protein Binding-Transferase Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Pautsch, M. Vogelsgesang, J. Trankle, C. Herrmann, K. Aktories
Crystal Structure Of The C3Bot-Rala Complex Reveals A Novel Type Of Action Of A Bacterial Exoenzyme.
Embo J. V. 24 3670 2005
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 3)
Info
All Hetero Components
1a: GUANOSINE-5'-DIPHOSPHATE (GDPa)
2a: MAGNESIUM ION (MGa)
3a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GDP
1
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE
2
MG
1
Ligand/Ion
MAGNESIUM ION
3
NAD
1
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
[
close Hetero Component info
]
Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
SER A:28 , GDP A:500 , HOH A:508 , HOH A:519 , HOH A:526 , HOH A:593
BINDING SITE FOR RESIDUE MG A 300
2
AC2
SOFTWARE
GLY A:24 , VAL A:25 , GLY A:26 , LYS A:27 , SER A:28 , ALA A:29 , GLU A:41 , ASP A:42 , ASN A:127 , LYS A:128 , ASP A:130 , LEU A:131 , SER A:157 , ALA A:158 , LYS A:159 , MG A:300 , HOH A:504 , HOH A:507 , HOH A:508 , HOH A:519 , HOH A:523 , HOH A:526 , HOH A:579
BINDING SITE FOR RESIDUE GDP A 500
3
AC3
SOFTWARE
THR B:80 , ALA B:83 , SER B:84 , ASN B:87 , ARG B:91 , ARG B:128 , GLY B:129 , ASP B:130 , ASP B:131 , ALA B:133 , TYR B:134 , ARG B:167 , GLU B:169 , SER B:174 , THR B:175 , PHE B:183 , ARG B:186 , GLN B:212 , GLU B:214 , HOH B:414 , HOH B:424 , HOH B:461 , HOH B:498 , HOH B:499 , HOH B:500
BINDING SITE FOR RESIDUE NAD B 400
[
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
(4, 4)
Info
All Exons
Exon 1.3a (A:13-38)
Exon 1.4b (A:39-108)
Exon 1.5 (A:108-166)
Exon 1.8d (A:167-182)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.1a/1.3a
2: Boundary 1.3a/1.4b
3: Boundary 1.4b/1.5
4: Boundary 1.5/1.8d
5: Boundary 1.8d/-
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
1.1a
ENST00000005257
1a
ENSE00001829077
chr7:
39663082-39663424
343
RALA_HUMAN
-
0
0
-
-
1.3a
ENST00000005257
3a
ENSE00000832451
chr7:
39726230-39726380
151
RALA_HUMAN
1-38
38
1
A:13-38
26
1.4b
ENST00000005257
4b
ENSE00000679279
chr7:
39729981-39730189
209
RALA_HUMAN
39-108
70
1
A:39-108
70
1.5
ENST00000005257
5
ENSE00000679282
chr7:
39736284-39736458
175
RALA_HUMAN
108-166
59
1
A:108-166
59
1.8d
ENST00000005257
8d
ENSE00001270055
chr7:
39745722-39747723
2002
RALA_HUMAN
167-206
40
1
A:167-182
16
[
close EXON info
]
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d2a9kb_ (B:)
2a: SCOP_d2a9ka_ (A:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
ADP-ribosylation
(157)
Superfamily
:
ADP-ribosylation
(157)
Family
:
ADP-ribosylating toxins
(85)
Protein domain
:
Exoenzyme c3
(11)
Clostridium botulinum [TaxId: 1491]
(6)
1a
d2a9kb_
B:
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
G proteins
(693)
Protein domain
:
Ras-related protein RalA
(8)
Human (Homo sapiens) [TaxId: 9606]
(5)
2a
d2a9ka_
A:
[
close SCOP info
]
CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_2a9kA00 (A:13-182)
2a: CATH_2a9kB00 (B:45-251)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Human (Homo sapiens)
(413)
1a
2a9kA00
A:13-182
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Toxin ADP-ribosyltransferase; Chain A, domain 1
(46)
Homologous Superfamily
:
Toxin ADP-ribosyltransferase; Chain A, domain 1
(46)
Human (Homo sapiens)
(3)
2a
2a9kB00
B:45-251
[
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
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 (72 KB)
Header - Asym.Unit
Biol.Unit 1 (66 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
2A9K
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
