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.
5F7S
Asym. Unit
Info
Asym.Unit (482 KB)
Biol.Unit 1 (238 KB)
Biol.Unit 2 (240 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CYCLOALTERNAN-DEGRADING ENZYME FROM TRUEPERELLA PYOGENES
Authors
:
S. H. Light, W. F. Anderson, Center For Structural Genomics Of Inf Diseases (Csgid)
Date
:
08 Dec 15 (Deposition) - 30 Dec 15 (Release) - 23 Nov 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Hydrolase, Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. H. Light, L. A. Cahoon, A. S. Halavaty, N. E. Freitag, W. F. Anderson
Structure To Function Of An Alpha-Glucan Metabolic Pathway That Promotes Listeria Monocytogenes Pathogenesis.
Nat Microbiol V. 2 16202 2016
[
close entry info
]
Hetero Components
(3, 12)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
1i: CALCIUM ION (CAi)
2a: DI(HYDROXYETHYL)ETHER (PEGa)
3a: TRIETHYLENE GLYCOL (PGEa)
3b: TRIETHYLENE GLYCOL (PGEb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
9
Ligand/Ion
CALCIUM ION
2
PEG
1
Ligand/Ion
DI(HYDROXYETHYL)ETHER
3
PGE
2
Ligand/Ion
TRIETHYLENE GLYCOL
[
close Hetero Component info
]
Sites
(12, 12)
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: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AD3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLN A:645 , HOH A:1201 , HOH B:951 , HOH B:1065 , HOH B:1101 , HOH B:1236
binding site for residue CA A 801
02
AC2
SOFTWARE
ALA A:133 , HOH A:934 , HOH A:1183 , HOH A:1191
binding site for residue CA A 802
03
AC3
SOFTWARE
ASN A:349 , HOH A:942 , HOH A:966 , HOH A:1040
binding site for residue CA A 803
04
AC4
SOFTWARE
HOH A:1034 , HOH A:1035 , HOH A:1068 , HOH A:1176 , HOH A:1208 , HOH B:979 , HOH B:1186
binding site for residue CA A 804
05
AC5
SOFTWARE
ASP A:467 , HOH A:947 , HOH A:1097 , HOH A:1132
binding site for residue CA A 805
06
AC6
SOFTWARE
GLU A:376 , GLU A:379 , HOH A:1049 , HOH A:1203 , HOH A:1212
binding site for residue CA A 806
07
AC7
SOFTWARE
GLU A:251
binding site for residue PEG A 807
08
AC8
SOFTWARE
GLU B:376 , GLU B:379 , HOH B:1055 , HOH B:1184 , HOH B:1224
binding site for residue CA B 801
09
AC9
SOFTWARE
ALA B:133 , HOH B:992 , HOH B:1161 , HOH B:1226
binding site for residue CA B 802
10
AD1
SOFTWARE
ASP B:467 , HOH B:1043
binding site for residue CA B 803
11
AD2
SOFTWARE
ARG B:162 , TRP B:237 , GLU B:251 , PGE B:805
binding site for residue PGE B 804
12
AD3
SOFTWARE
TYR B:13 , ARG B:191 , LEU B:192 , ASP B:193 , PGE B:804
binding site for residue PGE B 805
[
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
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 (482 KB)
Header - Asym.Unit
Biol.Unit 1 (238 KB)
Header - Biol.Unit 1
Biol.Unit 2 (240 KB)
Header - Biol.Unit 2
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
5F7S
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
