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.
2CLH
Asym. Unit
Info
Asym.Unit (118 KB)
Biol.Unit 1 (220 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
TRYPTOPHAN SYNTHASE IN COMPLEX WITH (NAPHTHALENE-2'-SULFONYL)-2-AMINO-1-ETHYLPHOSPHATE (F19)
Authors
:
H. Ngo, R. Harris, N. Kimmich, P. Casino, D. Niks, L. Blumenstein, T. R. Barends, V. Kulik, M. Weyand, I. Schlichting, M. F. Dunn
Date
:
27 Apr 06 (Deposition) - 12 Jun 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (2x)
Keywords
:
Aromatic Amino Acid Biosynthesis, Tryptophan Biosynthesis, Crbon- Oxygen Lyase, Amino-Acid Biosynthesis, Lyase, Allosteric Enzyme, Pyridoxal Phosphate
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Ngo, R. Harris, N. Kimmich, P. Casino, D. Niks, L. Blumenstein, T. R. Barends, V. Kulik, M. Weyand, I. Schlichting, M. F. Dunn
Synthesis And Characterization Of Allosteric Probes Of Substrate Channeling In The Tryptophan Synthase Bienzyme Complex.
Biochemistry V. 46 7713 2007
[
close entry info
]
Hetero Components
(3, 3)
Info
All Hetero Components
1a: 2-[(2-NAPHTHYLSULFONYL)AMINO]ETHYL... (F19a)
2a: SODIUM ION (NAa)
3a: PYRIDOXAL-5'-PHOSPHATE (PLPa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
F19
1
Ligand/Ion
2-[(2-NAPHTHYLSULFONYL)AMINO]ETHYLDIHYDROGEN PHOSPHATE
2
NA
1
Ligand/Ion
SODIUM ION
3
PLP
1
Ligand/Ion
PYRIDOXAL-5'-PHOSPHATE
[
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
GLY B:232 , PRO B:270 , PHE B:306 , SER B:308 , HOH B:2249 , HOH B:2288
BINDING SITE FOR RESIDUE NA A1267
2
AC2
SOFTWARE
PHE A:22 , GLU A:49 , ALA A:59 , LEU A:100 , LEU A:127 , ILE A:153 , TYR A:175 , THR A:183 , GLY A:184 , PHE A:212 , GLY A:213 , GLY A:234 , SER A:235 , HOH A:2156 , HOH A:2188
BINDING SITE FOR RESIDUE F19 A1268
3
AC3
SOFTWARE
ALA B:85 , HIS B:86 , LYS B:87 , GLN B:114 , THR B:190 , CYS B:230 , GLY B:232 , GLY B:233 , GLY B:234 , SER B:235 , ASN B:236 , GLY B:303 , GLU B:350 , SER B:377 , GLY B:378 , HOH B:2230 , HOH B:2365
BINDING SITE FOR RESIDUE PLP B1396
[
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, 2)
Info
All PROSITE Patterns/Profiles
1: TRP_SYNTHASE_ALPHA (A:48-61)
2: TRP_SYNTHASE_BETA (B:80-94)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TRP_SYNTHASE_ALPHA
PS00167
Tryptophan synthase alpha chain signature.
TRPA_SALTY
48-61
1
A:48-61
2
TRP_SYNTHASE_BETA
PS00168
Tryptophan synthase beta chain pyridoxal-phosphate attachment site.
TRPB_SALTY
80-94
1
B:80-94
[
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, 2)
Info
All SCOP Domains
1a: SCOP_d2clha1 (A:1-267)
2a: SCOP_d2clhb1 (B:3-394)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Ribulose-phoshate binding barrel
(356)
Family
:
Tryptophan biosynthesis enzymes
(108)
Protein domain
:
Trp synthase alpha-subunit
(62)
Salmonella typhimurium [TaxId: 90371]
(40)
1a
d2clha1
A:1-267
Fold
:
Tryptophan synthase beta subunit-like PLP-dependent enzymes
(165)
Superfamily
:
Tryptophan synthase beta subunit-like PLP-dependent enzymes
(165)
Family
:
Tryptophan synthase beta subunit-like PLP-dependent enzymes
(120)
Protein domain
:
Tryptophan synthase, beta-subunit
(45)
Salmonella typhimurium [TaxId: 90371]
(38)
2a
d2clhb1
B:3-394
[
close SCOP info
]
CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_2clhA00 (A:1-268)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Aldolase class I
(887)
Salmonella typhimurium. Organism_taxid: 602.
(22)
1a
2clhA00
A:1-268
[
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 (118 KB)
Header - Asym.Unit
Biol.Unit 1 (220 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
2CLH
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
