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.
1KH2
Asym. Unit
Info
Asym.Unit (261 KB)
Biol.Unit 1 (255 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 THERMUS THERMOPHILUS HB8 ARGININOSUCCINATE SYNTHETASE IN COMPLEX WITH ATP
Authors
:
M. Goto, Y Nakajima, K. Hirotsu, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date
:
29 Nov 01 (Deposition) - 03 Apr 02 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Ligase, Riken Structural Genomics/Proteomics Initiative, Rsgi, Structural Genomics
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Goto, Y. Nakajima, K. Hirotsu
Crystal Structure Of Argininosuccinate Synthetase From Thermus Thermophilus Hb8. Structural Basis For The Catalytic Action.
J. Biol. Chem. V. 277 15890 2002
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 4)
Info
All Hetero Components
1a: ADENOSINE-5'-TRIPHOSPHATE (ATPa)
1b: ADENOSINE-5'-TRIPHOSPHATE (ATPb)
1c: ADENOSINE-5'-TRIPHOSPHATE (ATPc)
1d: ADENOSINE-5'-TRIPHOSPHATE (ATPd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ATP
4
Ligand/Ion
ADENOSINE-5'-TRIPHOSPHATE
[
close Hetero Component info
]
Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ALA A:6 , SER A:8 , GLY A:10 , LEU A:11 , ASP A:12 , THR A:13 , PHE A:31 , ALA A:33 , GLN A:37 , ILE A:95 , HIS A:113 , GLY A:114 , ALA A:115 , PHE A:125
BINDING SITE FOR RESIDUE ATP A 510
2
AC2
SOFTWARE
ALA B:6 , TYR B:7 , SER B:8 , GLY B:10 , ASP B:12 , THR B:13 , PHE B:31 , THR B:32 , ALA B:33 , GLN B:37 , HIS B:113 , GLY B:114 , PHE B:125 , HOH B:1380
BINDING SITE FOR RESIDUE ATP B 1510
3
AC3
SOFTWARE
ALA C:6 , TYR C:7 , SER C:8 , GLY C:10 , LEU C:11 , ASP C:12 , THR C:13 , PHE C:31 , THR C:32 , ALA C:33 , GLN C:37 , HIS C:113 , GLY C:114 , PHE C:125
BINDING SITE FOR RESIDUE ATP C 2510
4
AC4
SOFTWARE
ALA D:6 , TYR D:7 , SER D:8 , GLY D:10 , LEU D:11 , ASP D:12 , THR D:13 , PHE D:31 , ALA D:33 , ARG D:92 , HIS D:113 , GLY D:114 , PHE D:125
BINDING SITE FOR RESIDUE ATP D 3510
[
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: ARGININOSUCCIN_SYN_1 (A:6-14,B:6-14,C:6-14,D:6-14)
2: ARGININOSUCCIN_SYN_2 (A:114-125,B:114-125,C:114-125,D:11...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ARGININOSUCCIN_SYN_1
PS00564
Argininosuccinate synthase signature 1.
ASSY_THET8
6-14
4
A:6-14
B:6-14
C:6-14
D:6-14
2
ARGININOSUCCIN_SYN_2
PS00565
Argininosuccinate synthase signature 2.
ASSY_THET8
114-125
4
A:114-125
B:114-125
C:114-125
D:114-125
[
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_d1kh2a2 (A:171-395)
1b: SCOP_d1kh2b2 (B:171-395)
1c: SCOP_d1kh2c2 (C:171-395)
1d: SCOP_d1kh2d2 (D:171-395)
2a: SCOP_d1kh2a1 (A:1-165)
2b: SCOP_d1kh2b1 (B:1-165)
2c: SCOP_d1kh2c1 (C:1-165)
2d: SCOP_d1kh2d1 (D:1-165)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Argininosuccinate synthetase, C-terminal domain
(14)
Superfamily
:
Argininosuccinate synthetase, C-terminal domain
(14)
Family
:
Argininosuccinate synthetase, C-terminal domain
(12)
Protein domain
:
Argininosuccinate synthetase, C-terminal domain
(12)
Thermus thermophilus [TaxId: 274]
(7)
1a
d1kh2a2
A:171-395
1b
d1kh2b2
B:171-395
1c
d1kh2c2
C:171-395
1d
d1kh2d2
D:171-395
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Adenine nucleotide alpha hydrolase-like
(440)
Superfamily
:
Adenine nucleotide alpha hydrolases-like
(110)
Family
:
N-type ATP pyrophosphatases
(44)
Protein domain
:
Argininosuccinate synthetase, N-terminal domain
(12)
Thermus thermophilus [TaxId: 274]
(7)
2a
d1kh2a1
A:1-165
2b
d1kh2b1
B:1-165
2c
d1kh2c1
C:1-165
2d
d1kh2d1
D:1-165
[
close SCOP info
]
CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1kh2A01 (A:1-171)
1b: CATH_1kh2B01 (B:1-171)
1c: CATH_1kh2D01 (D:1-171)
1d: CATH_1kh2C01 (C:1-60,C:90-165)
2a: CATH_1kh2A02 (A:172-395)
2b: CATH_1kh2B02 (B:172-395)
2c: CATH_1kh2D02 (D:172-395)
2d: CATH_1kh2C02 (C:61-89,C:171-354)
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
:
Tyrosyl-Transfer RNA Synthetase , subunit E, domain 1
(328)
Thermus thermophilus. Organism_taxid: 274.
(11)
1a
1kh2A01
A:1-171
1b
1kh2B01
B:1-171
1c
1kh2D01
D:1-171
1d
1kh2C01
C:1-60,C:90-165
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Argininosuccinate synthetase, chain A, domain 2
(13)
Homologous Superfamily
:
Argininosuccinate synthetase, chain A, domain 2
(13)
Thermus thermophilus. Organism_taxid: 274.
(7)
2a
1kh2A02
A:172-395
2b
1kh2B02
B:172-395
2c
1kh2D02
D:172-395
2d
1kh2C02
C:61-89,C:171-354
[
close CATH info
]
Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Arginosuc_synth_1kh2D01 (D:4-391)
1b: PFAM_Arginosuc_synth_1kh2D02 (D:4-391)
1c: PFAM_Arginosuc_synth_1kh2D03 (D:4-391)
1d: PFAM_Arginosuc_synth_1kh2D04 (D:4-391)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
HUP
(230)
Family
:
Arginosuc_synth
(8)
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
(3)
1a
Arginosuc_synth-1kh2D01
D:4-391
1b
Arginosuc_synth-1kh2D02
D:4-391
1c
Arginosuc_synth-1kh2D03
D:4-391
1d
Arginosuc_synth-1kh2D04
D:4-391
[
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 (261 KB)
Header - Asym.Unit
Biol.Unit 1 (255 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
1KH2
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help