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.
2C2H
Biol. Unit 2
Info
Asym.Unit (74 KB)
Biol.Unit 1 (35 KB)
Biol.Unit 2 (33 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 HUMAN RAC3 IN COMPLEX WITH GDP
Authors
:
J. E. Debreczeni, X. Yang, Y. Zao, J. Elkins, C. Gileadi, N. Burgess, S. C O. Gileadi, O. Fedorov, G. Bunkoczi, F. Von Delft, D. Doyle, M. Sundst C. Arrowsmith, J. Weigelt, A. Edwards
Date
:
29 Sep 05 (Deposition) - 13 Oct 05 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.85
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Gtpase Rac3, Small Gtp Binding Protein, P21 Rac, Ras- Related C3 Butulinum Toxin Substrate 3, Signaling Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. E. Debreczeni, X. Yang, Y. Zao, J. Elkins, C. Gileadi, N. Burgess, S. Colebrook, O. Gileadi, O. Fedorov, G. Bunkoczi, F. Von Delft, D. Doyle, M. Sundstrom, C. Arrowsmith, J. Weigelt, A. Edwards
Crystal Structure Of The Human Rac3 In Complex With Gdp
To Be Published
[
close entry info
]
Hetero Components
(2, 6)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
1i: CALCIUM ION (CAi)
1j: CALCIUM ION (CAj)
1k: CALCIUM ION (CAk)
1l: CALCIUM ION (CAl)
2a: GUANOSINE-5'-DIPHOSPHATE (GDPa)
2b: GUANOSINE-5'-DIPHOSPHATE (GDPb)
2c: GUANOSINE-5'-DIPHOSPHATE (GDPc)
2d: GUANOSINE-5'-DIPHOSPHATE (GDPd)
2e: GUANOSINE-5'-DIPHOSPHATE (GDPe)
2f: GUANOSINE-5'-DIPHOSPHATE (GDPf)
2g: GUANOSINE-5'-DIPHOSPHATE (GDPg)
2h: GUANOSINE-5'-DIPHOSPHATE (GDPh)
2i: GUANOSINE-5'-DIPHOSPHATE (GDPi)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
3c: MAGNESIUM ION (MGc)
3d: MAGNESIUM ION (MGd)
3e: MAGNESIUM ION (MGe)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
4c: SULFATE ION (SO4c)
4d: SULFATE ION (SO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
-1
Ligand/Ion
CALCIUM ION
2
GDP
4
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE
3
MG
-1
Ligand/Ion
MAGNESIUM ION
4
SO4
2
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(15, 15)
Info
All Sites
01: BC3 (SOFTWARE)
02: BC4 (SOFTWARE)
03: BC5 (SOFTWARE)
04: BC6 (SOFTWARE)
05: BC7 (SOFTWARE)
06: BC8 (SOFTWARE)
07: BC9 (SOFTWARE)
08: CC1 (SOFTWARE)
09: CC2 (SOFTWARE)
10: CC3 (SOFTWARE)
11: CC8 (SOFTWARE)
12: CC9 (SOFTWARE)
13: DC1 (SOFTWARE)
14: DC2 (SOFTWARE)
15: DC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
BC3
SOFTWARE
HIS B:107 , GDP B:1181 , SO4 B:1187 , SO4 B:1188
BINDING SITE FOR RESIDUE CA B1182
02
BC4
SOFTWARE
GDP B:1181 , SO4 B:1187
BINDING SITE FOR RESIDUE CA B1183
03
BC5
SOFTWARE
HIS B:104 , GDP B:1179 , GDP B:1180 , HOH B:2049
BINDING SITE FOR RESIDUE CA B1184
04
BC6
SOFTWARE
HIS B:103 , GDP B:1179 , GDP B:1180
BINDING SITE FOR RESIDUE CA B1185
05
BC7
SOFTWARE
GDP B:1181
BINDING SITE FOR RESIDUE CA B1186
06
BC8
SOFTWARE
HIS B:107 , GDP B:1181 , CA B:1182 , CA B:1183 , SO4 B:1188 , CA B:1191 , HOH B:2059 , HOH B:2060
BINDING SITE FOR RESIDUE SO4 B1187
07
BC9
SOFTWARE
PRO B:106 , HIS B:107 , GDP B:1180 , GDP B:1181 , CA B:1182 , SO4 B:1187 , CA B:1191 , HOH B:2061
BINDING SITE FOR RESIDUE SO4 B1188
08
CC1
SOFTWARE
THR B:17 , GDP B:1178 , HOH B:2005 , HOH B:2013 , HOH B:2044 , HOH B:2045
BINDING SITE FOR RESIDUE MG B1189
09
CC2
SOFTWARE
GDP B:1179 , GDP B:1180 , HOH B:2046 , HOH B:2048
BINDING SITE FOR RESIDUE MG B1190
10
CC3
SOFTWARE
SO4 B:1187 , SO4 B:1188 , HOH B:2061
BINDING SITE FOR RESIDUE CA B1191
11
CC8
SOFTWARE
ALA A:27 , PHE A:28 , GLY A:30 , LEU A:117 , ARG A:120 , TYR A:139 , GLU A:156 , ARG A:163 , HOH A:2071 , HOH A:2100 , HOH A:2101 , ASP B:170
BINDING SITE FOR RESIDUE GDP A1182
12
CC9
SOFTWARE
ALA B:13 , VAL B:14 , GLY B:15 , LYS B:16 , THR B:17 , CYS B:18 , PHE B:28 , LYS B:116 , ASP B:118 , LEU B:119 , SER B:158 , ALA B:159 , LEU B:160 , MG B:1189 , HOH B:2003 , HOH B:2013 , HOH B:2044 , HOH B:2045
BINDING SITE FOR RESIDUE GDP B1178
13
DC1
SOFTWARE
PRO B:99 , GLU B:100 , HIS B:103 , HIS B:104 , GDP B:1180 , GDP B:1181 , CA B:1184 , CA B:1185 , MG B:1190 , HOH B:2046 , HOH B:2047 , HOH B:2048
BINDING SITE FOR RESIDUE GDP B1179
14
DC2
SOFTWARE
HIS B:103 , HIS B:104 , PRO B:106 , GDP B:1179 , GDP B:1181 , CA B:1184 , CA B:1185 , SO4 B:1188 , MG B:1190 , HOH B:2046 , HOH B:2048 , HOH B:2049 , HOH B:2050 , HOH B:2051 , HOH B:2052 , HOH B:2054 , HOH B:2055
BINDING SITE FOR RESIDUE GDP B1180
15
DC3
SOFTWARE
HIS B:107 , GDP B:1179 , GDP B:1180 , CA B:1182 , CA B:1183 , CA B:1186 , SO4 B:1187 , SO4 B:1188 , HOH B:2029 , HOH B:2051 , HOH B:2055 , HOH B:2056 , HOH B:2057 , HOH B:2058 , HOH B:2059
BINDING SITE FOR RESIDUE GDP B1181
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: RHO (B:1-176)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RHO
PS51420
small GTPase Rho family profile.
RAC3_HUMAN
1-176
1
B:1-176
[
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.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d2c2hb_ (B:)
2a: SCOP_d2c2ha1 (A:3-177)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
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
:
automated matches
(173)
Human (Homo sapiens) [TaxId: 9606]
(112)
1a
d2c2hb_
B:
Protein domain
:
Rac3
(1)
Human (Homo sapiens) [TaxId: 9606]
(1)
2a
d2c2ha1
A:3-177
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2c2hB00 (B:1-177)
1b: CATH_2c2hA00 (A:3-177)
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
2c2hB00
B:1-177
1b
2c2hA00
A:3-177
[
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 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 (74 KB)
Header - Asym.Unit
Biol.Unit 1 (35 KB)
Header - Biol.Unit 1
Biol.Unit 2 (33 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
2C2H
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help