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...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
1G4U
Asym. Unit
Info
Asym.Unit (99 KB)
Biol.Unit 1 (94 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 SALMONELLA TYROSINE PHOSPHATASE AND GTPASE ACTIVATING PROTEIN SPTP BOUND TO RAC1
Authors
:
C. E. Stebbins, J. E. Galan
Date
:
28 Oct 00 (Deposition) - 24 Jan 01 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : R,S
Biol. Unit 1: R,S (1x)
Keywords
:
Virulence Factor, Gap, Tyrosine Phosphatase, 4-Helix Bundle, Gtpase, Signaling Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. E. Stebbins, J. E. Galan
Modulation Of Host Signaling By A Bacterial Mimic: Structure Of The Salmonella Effector Sptp Bound To Rac1.
Mol. Cell V. 6 1449 2000
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 3)
Info
All Hetero Components
1a: ALUMINUM FLUORIDE (AF3a)
2a: GUANOSINE-5'-DIPHOSPHATE (GDPa)
3a: MAGNESIUM ION (MGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
AF3
1
Ligand/Ion
ALUMINUM FLUORIDE
2
GDP
1
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE
3
MG
1
Ligand/Ion
MAGNESIUM ION
[
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
THR R:17 , THR R:35 , GDP R:1000 , AF3 R:1002 , HOH R:1072 , HOH R:1073
BINDING SITE FOR RESIDUE MG R 1001
2
AC2
SOFTWARE
ALA R:13 , VAL R:14 , GLY R:15 , LYS R:16 , THR R:17 , CYS R:18 , LYS R:116 , ASP R:118 , SER R:158 , ALA R:159 , LEU R:160 , MG R:1001 , AF3 R:1002 , HOH R:1004 , HOH R:1010 , HOH R:1042 , HOH R:1072 , HOH R:1073 , ARG S:209 , THR S:249 , CYS S:250 , HOH S:680
BINDING SITE FOR RESIDUE GDP R 1000
3
AC3
SOFTWARE
GLY R:12 , ALA R:13 , LYS R:16 , THR R:35 , GLY R:60 , GLN R:61 , GDP R:1000 , MG R:1001 , HOH R:1071 , ARG S:209
BINDING SITE FOR RESIDUE AF3 R 1002
[
close Site info
]
SAPs(SNPs)/Variants
(11, 11)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_014540 (N26D, chain R, )
02: VAR_014541 (F28L, chain R, )
03: VAR_014542 (A59T, chain R, )
04: VAR_014543 (D63G, chain R, )
05: VAR_014545 (V93G, chain R, )
06: VAR_014544 (V93I, chain R, )
07: VAR_014546 (T108I, chain R, )
08: VAR_014547 (K130R, chain R, )
09: VAR_014548 (K133E, chain R, )
10: VAR_033303 (T135I, chain R, )
11: VAR_014549 (P180S, chain R, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_014540
N
26
D
RAC1_HUMAN
Polymorphism
5830
R
N
26
D
02
UniProt
VAR_014541
F
28
L
RAC1_HUMAN
Polymorphism
5832
R
F
28
L
03
UniProt
VAR_014542
A
59
T
RAC1_HUMAN
Polymorphism
5837
R
A
59
T
04
UniProt
VAR_014543
D
63
G
RAC1_HUMAN
Polymorphism
5831
R
D
63
G
05
UniProt
VAR_014545
V
93
G
RAC1_HUMAN
Polymorphism
5826
R
V
93
G
06
UniProt
VAR_014544
V
93
I
RAC1_HUMAN
Polymorphism
5825
R
V
93
I
07
UniProt
VAR_014546
T
108
I
RAC1_HUMAN
Polymorphism
5838
R
T
108
I
08
UniProt
VAR_014547
K
130
R
RAC1_HUMAN
Polymorphism
5828
R
K
130
R
09
UniProt
VAR_014548
K
133
E
RAC1_HUMAN
Polymorphism
5835
R
K
133
E
10
UniProt
VAR_033303
T
135
I
RAC1_HUMAN
Polymorphism
11540455
R
T
135
I
11
UniProt
VAR_014549
P
180
S
RAC1_HUMAN
Polymorphism
16063
R
P
180
S
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(4, 4)
Info
All PROSITE Patterns/Profiles
1: RHO (R:1-176)
2: TYR_PHOSPHATASE_PTP (S:315-493)
3: TYR_PHOSPHATASE_2 (S:452-527)
4: TYR_PHOSPHATASE_1 (S:479-489)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RHO
PS51420
small GTPase Rho family profile.
RAC1_HUMAN
1-176
1
R:1-176
2
TYR_PHOSPHATASE_PTP
PS50055
PTP type protein phosphatase family profile.
SPTP_SALTY
315-493
1
S:315-493
3
TYR_PHOSPHATASE_2
PS50056
Tyrosine specific protein phosphatases family profile.
SPTP_SALTY
452-527
1
S:452-527
4
TYR_PHOSPHATASE_1
PS00383
Tyrosine specific protein phosphatases active site.
SPTP_SALTY
479-489
1
S:479-489
[
close PROSITE info
]
Exons
(6, 6)
Info
All Exons
Exon 1.1a (R:1-12)
Exon 1.3 (R:12-36)
Exon 1.5 (R:36-75)
Exon 1.7b (R:76-96)
Exon 1.8b (R:97-150)
Exon 1.9f (R:150-180)
View:
Select:
Label:
All Exon Boundaries
1: Boundary -/1.1a
2: Boundary 1.1a/1.3
3: Boundary 1.3/1.5
4: Boundary 1.5/1.7b
5: Boundary 1.7b/1.8b
6: Boundary 1.8b/1.9f
7: Boundary 1.9f/-
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
ENST00000348035
1a
ENSE00001876788
chr7:
6414154-6414401
248
RAC1_HUMAN
1-12
12
1
R:1-12
12
1.3
ENST00000348035
3
ENSE00001676753
chr7:
6426843-6426914
72
RAC1_HUMAN
12-36
25
1
R:12-36
25
1.5
ENST00000348035
5
ENSE00001643043
chr7:
6431555-6431672
118
RAC1_HUMAN
36-75
40
1
R:36-75
40
1.7b
ENST00000348035
7b
ENSE00000831659
chr7:
6439757-6439819
63
RAC1_HUMAN
76-96
21
1
R:76-96
21
1.8b
ENST00000348035
8b
ENSE00001637705
chr7:
6441499-6441658
160
RAC1_HUMAN
97-150
54
1
R:97-150
54
1.9f
ENST00000348035
9f
ENSE00001551063
chr7:
6441947-6443608
1662
RAC1_HUMAN
150-192
43
1
R:150-180
31
[
close EXON info
]
SCOP Domains
(3, 3)
Info
All SCOP Domains
1a: SCOP_d1g4us1 (S:167-296)
2a: SCOP_d1g4us2 (S:297-539)
3a: SCOP_d1g4ur_ (R:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Four-helical up-and-down bundle
(308)
Superfamily
:
Bacterial GAP domain
(6)
Family
:
Bacterial GAP domain
(6)
Protein domain
:
SptP tyrosine phosphatase
(2)
Salmonella typhimurium [TaxId: 90371]
(2)
1a
d1g4us1
S:167-296
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
(Phosphotyrosine protein) phosphatases II
(296)
Superfamily
:
(Phosphotyrosine protein) phosphatases II
(296)
Family
:
Higher-molecular-weight phosphotyrosine protein phosphatases
(166)
Protein domain
:
SptP tyrosine phosphatase, catalytic domain
(2)
Salmonella typhimurium [TaxId: 90371]
(2)
2a
d1g4us2
S:297-539
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
G proteins
(693)
Protein domain
:
Rac
(17)
Human (Homo sapiens) [TaxId: 9606]
(17)
3a
d1g4ur_
R:
[
close SCOP info
]
CATH Domains
(3, 3)
Info
all CATH domains
1a: CATH_1g4uR00 (R:1-180)
2a: CATH_1g4uS02 (S:319-539)
3a: CATH_1g4uS01 (S:167-293)
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)
Salmonella typhimurium. Organism_taxid: 602.
(4)
1a
1g4uR00
R:1-180
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Protein-Tyrosine Phosphatase; Chain A
(262)
Homologous Superfamily
:
Protein tyrosine phosphatase superfamily
(228)
Salmonella typhimurium. Organism_taxid: 602.
(2)
2a
1g4uS02
S:319-539
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Four Helix Bundle (Hemerythrin (Met), subunit A)
(300)
Homologous Superfamily
:
[code=1.20.120.260, no name defined]
(6)
Salmonella typhimurium. Organism_taxid: 602.
(2)
3a
1g4uS01
S:167-293
[
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 R
Chain S
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 (99 KB)
Header - Asym.Unit
Biol.Unit 1 (94 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
1G4U
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help