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.
4JEW
Asym. Unit
Info
Asym.Unit (144 KB)
Biol.Unit 1 (138 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
N-ACETYLORNITHINE AMINOTRANSFERASE FROM S. TYPHIMURIUM COMPLEXED WITH L-CANALINE
Authors
:
S. Bisht, S. R. Bharath, M. R. N. Murthy
Date
:
27 Feb 13 (Deposition) - 26 Mar 14 (Release) - 26 Mar 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.48
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Plp Dependent Fold Type I Sub Class Ii Aminotransferase, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Bisht, S. R. Bharath, M. R. N. Murthy
Conformational Transitions, Ligand Specificity And Catalysi In N-Acetylornithine Aminotransferase: Implications On Drug Designing And Rational Enzyme Engineering In Omega Aminotransferases.
To Be Published
[
close entry info
]
Hetero Components
(4, 17)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
1e: ACETATE ION (ACTe)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
3a: (2S)-2-AZANYL-4-[(E)-[2-METHYL-3-O... (P00a)
3b: (2S)-2-AZANYL-4-[(E)-[2-METHYL-3-O... (P00b)
4a: PICRIC ACID (TNFa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
5
Ligand/Ion
ACETATE ION
2
EDO
9
Ligand/Ion
1,2-ETHANEDIOL
3
P00
2
Ligand/Ion
(2S)-2-AZANYL-4-[(E)-[2-METHYL-3-OXIDANYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]OXY-BUTANOIC ACID
4
TNF
1
Ligand/Ion
PICRIC ACID
[
close Hetero Component info
]
Sites
(17, 17)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER A:107 , GLY A:108 , THR A:109 , ASN A:112 , PHE A:141 , HIS A:142 , GLY A:143 , ARG A:144 , GLU A:193 , GLU A:198 , ASP A:226 , VAL A:228 , GLN A:229 , LYS A:255 , HOH A:636 , HOH A:666 , HOH A:697 , HOH A:700 , HOH A:708 , GLY B:282 , SER B:283 , THR B:284 , HOH B:633
BINDING SITE FOR RESIDUE P00 A 501
02
AC2
SOFTWARE
SER A:78 , VAL A:80 , PHE A:81 , EDO A:504 , HOH A:620 , HOH A:677 , ALA B:48 , GLY B:50 , LEU B:369
BINDING SITE FOR RESIDUE ACT A 502
03
AC3
SOFTWARE
GLY A:57 , HIS A:58 , CYS A:59 , HIS A:60 , LEU A:63 , GLY A:259 , HOH A:605 , TRP B:75
BINDING SITE FOR RESIDUE EDO A 503
04
AC4
SOFTWARE
HIS A:76 , THR A:77 , SER A:78 , PHE A:81 , ACT A:502 , HOH A:620 , HOH A:833 , ASP B:46 , GLY B:50 , HIS B:58 , MET B:367
BINDING SITE FOR RESIDUE EDO A 504
05
AC5
SOFTWARE
TYR A:122 , GLU A:271 , HOH A:651 , HOH A:687 , HOH A:757
BINDING SITE FOR RESIDUE EDO A 505
06
AC6
SOFTWARE
SER A:128 , LYS A:131 , ASP A:185 , HIS A:186 , HOH A:879
BINDING SITE FOR RESIDUE EDO A 506
07
AC7
SOFTWARE
LYS A:30 , LYS A:32 , TRP A:37 , GLY A:41 , LEU B:18 , PRO B:19 , TYR B:21 , ARG B:355 , TYR B:359
BINDING SITE FOR RESIDUE TNF A 507
08
AC8
SOFTWARE
LYS A:133 , ILE A:168 , HIS A:170 , HOH A:616 , HOH A:675 , HOH A:680 , HOH A:707
BINDING SITE FOR RESIDUE ACT A 508
09
AC9
SOFTWARE
THR A:6 , ILE A:8 , HOH A:844 , ARG B:88
BINDING SITE FOR RESIDUE ACT A 509
10
BC1
SOFTWARE
VAL A:80 , ALA B:22 , PRO B:23 , PHE B:26 , TYR B:359 , ALA B:362 , HOH B:676 , HOH B:813
BINDING SITE FOR RESIDUE ACT B 501
11
BC2
SOFTWARE
TRP A:75 , GLY B:57 , HIS B:58 , CYS B:59 , HIS B:60 , LEU B:63 , GLY B:259 , HOH B:640
BINDING SITE FOR RESIDUE EDO B 502
12
BC3
SOFTWARE
TYR B:122 , GLU B:271 , ILE B:272 , HOH B:698 , HOH B:727
BINDING SITE FOR RESIDUE EDO B 503
13
BC4
SOFTWARE
PHE A:13 , ASN B:79 , THR B:82 , ASN B:83 , ALA B:86 , GLY B:287 , HOH B:638 , HOH B:710
BINDING SITE FOR RESIDUE EDO B 504
14
BC5
SOFTWARE
LYS B:133 , ILE B:168 , HIS B:170 , HOH B:693 , HOH B:695 , HOH B:744 , HOH B:862
BINDING SITE FOR RESIDUE ACT B 505
15
BC6
SOFTWARE
VAL A:80 , LEU B:369 , ASN B:370 , ARG B:377 , HOH B:907
BINDING SITE FOR RESIDUE EDO B 506
16
BC7
SOFTWARE
SER B:128 , ASP B:185 , HIS B:186
BINDING SITE FOR RESIDUE EDO B 507
17
BC8
SOFTWARE
HOH A:782 , SER B:107 , GLY B:108 , THR B:109 , ASN B:112 , PHE B:141 , HIS B:142 , GLU B:193 , GLU B:198 , ASP B:226 , VAL B:228 , GLN B:229 , LYS B:255 , HOH B:721
BINDING SITE FOR RESIDUE P00 B 508
[
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
(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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d4jewa_ (A:)
1b: SCOP_d4jewb_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
PLP-dependent transferase-like
(627)
Superfamily
:
PLP-dependent transferases
(625)
Family
:
automated matches
(163)
Protein domain
:
automated matches
(163)
Salmonella typhimurium [TaxId: 99287]
(9)
1a
d4jewa_
A:
1b
d4jewb_
B:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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 (144 KB)
Header - Asym.Unit
Biol.Unit 1 (138 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
4JEW
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help