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.
4AZH
Asym. Unit
Info
Asym.Unit (300 KB)
Biol.Unit 1 (79 KB)
Biol.Unit 2 (77 KB)
Biol.Unit 3 (77 KB)
Biol.Unit 4 (76 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
DIFFERENTIAL INHIBITION OF THE TANDEM GH20 CATALYTIC MODULES IN THE PNEUMOCOCCAL EXO-BETA-D-N-ACETYLGLUCOSAMINIDASE, STRH
Authors
:
B. Pluvinage, K. A. Stubbs, D. J. Vocadlo, A. B. Boraston
Date
:
26 Jun 12 (Deposition) - 10 Jul 13 (Release) - 13 Nov 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.22
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. Pluvinage, K. A. Stubbs, D. J. Vocadlo, A. B. Boraston
Inhibition Of The Family 20 Glycoside Hydrolase Catalytic Modules In The Streptococcus Pneumoniae Exo-Beta-D-N- Acetylglucosaminidase, Strh.
Org. Biomol. Chem. V. 11 7907 2013
[
close entry info
]
Hetero Components
(2, 16)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
1h: 1,2-ETHANEDIOL (EDOh)
1i: 1,2-ETHANEDIOL (EDOi)
1j: 1,2-ETHANEDIOL (EDOj)
1k: 1,2-ETHANEDIOL (EDOk)
1l: 1,2-ETHANEDIOL (EDOl)
2a: LOGNAC (LOGa)
2b: LOGNAC (LOGb)
2c: LOGNAC (LOGc)
2d: LOGNAC (LOGd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
12
Ligand/Ion
1,2-ETHANEDIOL
2
LOG
4
Ligand/Ion
LOGNAC
[
close Hetero Component info
]
Sites
(16, 16)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:641 , HIS A:742 , ASP A:804 , GLU A:805 , PHE A:849 , TRP A:872 , TYR A:902 , ILE A:904 , TRP A:951 , ASP A:953 , HOH A:3040 , HOH A:3153
BINDING SITE FOR RESIDUE LOG A2044
02
AC2
SOFTWARE
ARG C:641 , HIS C:742 , ASP C:804 , GLU C:805 , PHE C:849 , TRP C:872 , TYR C:902 , ILE C:904 , TRP C:951 , ASP C:953 , HOH C:3044 , HOH C:3158 , HOH C:3328 , HOH C:3329
BINDING SITE FOR RESIDUE LOG C2041
03
AC3
SOFTWARE
ARG D:641 , HIS D:742 , ASP D:804 , GLU D:805 , PHE D:849 , TRP D:872 , TYR D:902 , ILE D:904 , TRP D:951 , ASP D:953 , HOH D:3033 , HOH D:3165 , HOH D:3297 , HOH D:3298
BINDING SITE FOR RESIDUE LOG D2040
04
AC4
SOFTWARE
ARG B:641 , HIS B:742 , ASP B:804 , GLU B:805 , PHE B:849 , TRP B:872 , TYR B:902 , ILE B:904 , TRP B:951 , ASP B:953 , HOH B:3038 , HOH B:3141 , HOH B:3310
BINDING SITE FOR RESIDUE LOG B2042
05
AC5
SOFTWARE
ALA A:760 , HIS A:761 , PHE A:762 , ASP A:771 , LEU A:772 , TYR A:806 , LEU A:824 , EDO A:2047 , HOH A:3118
BINDING SITE FOR RESIDUE EDO A2045
06
AC6
SOFTWARE
ALA C:760 , HIS C:761 , ASP C:771 , LEU C:772 , LYS C:773 , TYR C:806 , LEU C:824 , EDO C:2045
BINDING SITE FOR RESIDUE EDO C2042
07
AC7
SOFTWARE
GLU A:962 , HOH A:3307 , GLN B:648 , ARG B:651 , TYR B:959 , GLU B:961 , HOH B:3263
BINDING SITE FOR RESIDUE EDO B2043
08
AC8
SOFTWARE
ASP A:857 , LYS A:874 , HOH A:3193 , GLY C:794 , THR C:796
BINDING SITE FOR RESIDUE EDO C2043
09
AC9
SOFTWARE
ARG C:954 , GLU C:958 , HOH C:3241
BINDING SITE FOR RESIDUE EDO C2044
10
BC1
SOFTWARE
ARG A:641 , HIS A:742 , GLU A:805 , HOH A:3355
BINDING SITE FOR RESIDUE EDO A2046
11
BC2
SOFTWARE
HIS A:761 , PHE A:762 , EDO A:2045 , EDO A:2048 , HOH A:3122 , HOH A:3123
BINDING SITE FOR RESIDUE EDO A2047
12
BC3
SOFTWARE
TYR A:822 , EDO A:2047 , HOH A:3162
BINDING SITE FOR RESIDUE EDO A2048
13
BC4
SOFTWARE
HIS C:761 , LYS C:773 , TYR C:822 , EDO C:2042 , HOH C:3126
BINDING SITE FOR RESIDUE EDO C2045
14
BC5
SOFTWARE
ALA B:760 , HIS B:761 , PHE B:762 , ASP B:771 , LEU B:772 , TYR B:806 , LEU B:824 , HOH B:3119
BINDING SITE FOR RESIDUE EDO B2044
15
BC6
SOFTWARE
TYR C:705 , HOH C:3330
BINDING SITE FOR RESIDUE EDO C2046
16
BC7
SOFTWARE
GLY C:899 , TYR C:902 , GLY C:914 , HOH C:3237 , HOH C:3329
BINDING SITE FOR RESIDUE EDO C2047
[
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
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
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
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 (300 KB)
Header - Asym.Unit
Biol.Unit 1 (79 KB)
Header - Biol.Unit 1
Biol.Unit 2 (77 KB)
Header - Biol.Unit 2
Biol.Unit 3 (77 KB)
Header - Biol.Unit 3
Biol.Unit 4 (76 KB)
Header - Biol.Unit 4
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
4AZH
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
