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.
2VUN
Asym. Unit
Info
Asym.Unit (254 KB)
Biol.Unit 1 (248 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
THE CRYSTAL STRUCTURE OF ENAMIDASE AT 1.9 A RESOLUTION - A NEW MEMBER OF THE AMIDOHYDROLASE SUPERFAMILY
Authors
:
D. Kress, A. Alhapel, A. J. Pierik, L. -O. Essen
Date
:
27 May 08 (Deposition) - 09 Dec 08 (Release) - 09 Dec 08 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.89
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Nicotinate Degradation, Binuclear Metal Center, Amidohydrolases, Stereospecificity, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. Kress, A. Alhapel, A. J. Pierik, L. -O. Essen
The Crystal Structure Of Enamidase: A Bifunctional Enzyme Of The Nicotinate Catabolism.
J. Mol. Biol. V. 384 837 2008
[
close entry info
]
Hetero Components
(4, 17)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
2a: FE (III) ION (FEa)
2b: FE (III) ION (FEb)
2c: FE (III) ION (FEc)
2d: FE (III) ION (FEd)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
4a: ZINC ION (ZNa)
4b: ZINC ION (ZNb)
4c: ZINC ION (ZNc)
4d: ZINC ION (ZNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
4
Ligand/Ion
CHLORIDE ION
2
FE
4
Ligand/Ion
FE (III) ION
3
GOL
5
Ligand/Ion
GLYCEROL
4
ZN
4
Ligand/Ion
ZINC ION
[
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
HIS A:67 , HIS A:69 , GLU A:164 , ASP A:276 , FE A:402 , CL A:501 , HOH A:2362
BINDING SITE FOR RESIDUE ZN A 401
02
AC2
SOFTWARE
GLU A:164 , HIS A:193 , HIS A:220 , ZN A:401 , HOH A:2205 , HOH A:2222 , HOH A:2362
BINDING SITE FOR RESIDUE FE A 402
03
AC3
SOFTWARE
ZN A:401 , HOH A:2205 , HOH A:2362
BINDING SITE FOR RESIDUE CL A 501
04
AC4
SOFTWARE
HIS B:67 , HIS B:69 , GLU B:164 , ASP B:276 , FE B:402 , CL B:501 , HOH B:2314
BINDING SITE FOR RESIDUE ZN B 401
05
AC5
SOFTWARE
GLU B:164 , HIS B:193 , HIS B:220 , ZN B:401 , HOH B:2173 , HOH B:2188 , HOH B:2314
BINDING SITE FOR RESIDUE FE B 402
06
AC6
SOFTWARE
ZN B:401 , HOH B:2173 , HOH B:2227 , HOH B:2314
BINDING SITE FOR RESIDUE CL B 501
07
AC7
SOFTWARE
HIS C:67 , HIS C:69 , GLU C:164 , ASP C:276 , CL C:501 , HOH C:2312
BINDING SITE FOR RESIDUE ZN C 401
08
AC8
SOFTWARE
GLU C:164 , HIS C:193 , HIS C:220 , HOH C:2177 , HOH C:2186 , HOH C:2312
BINDING SITE FOR RESIDUE FE C 402
09
AC9
SOFTWARE
ZN C:401 , HOH C:2177 , HOH C:2186 , HOH C:2215 , HOH C:2312
BINDING SITE FOR RESIDUE CL C 501
10
BC1
SOFTWARE
HIS D:67 , HIS D:69 , GLU D:164 , ASP D:276 , FE D:402 , CL D:501 , HOH D:2246
BINDING SITE FOR RESIDUE ZN D 401
11
BC2
SOFTWARE
GLU D:164 , HIS D:193 , HIS D:220 , ZN D:401 , HOH D:2139 , HOH D:2149 , HOH D:2246
BINDING SITE FOR RESIDUE FE D 402
12
BC3
SOFTWARE
HIS D:69 , ZN D:401 , HOH D:2139 , HOH D:2150 , HOH D:2246
BINDING SITE FOR RESIDUE CL D 501
13
BC4
SOFTWARE
GLY D:100 , SER D:101 , ARG D:107 , PRO D:108 , THR D:114 , LEU D:117 , ALA D:139 , VAL D:140 , ILE D:141
BINDING SITE FOR RESIDUE GOL D1390
14
BC5
SOFTWARE
GLY C:100 , SER C:101 , ARG C:107 , PRO C:108 , THR C:114 , LEU C:117 , ALA C:139 , VAL C:140 , ILE C:141 , HOH C:2139
BINDING SITE FOR RESIDUE GOL C1390
15
BC6
SOFTWARE
GLY B:100 , SER B:101 , ARG B:107 , PRO B:108 , THR B:114 , LEU B:117 , ALA B:139 , VAL B:140 , ILE B:141
BINDING SITE FOR RESIDUE GOL B1390
16
BC7
SOFTWARE
SER A:101 , ARG A:107 , PRO A:108 , THR A:114 , LEU A:117 , ALA A:139 , VAL A:140 , ILE A:141 , HOH A:2156
BINDING SITE FOR RESIDUE GOL A1390
17
BC8
SOFTWARE
GLY A:266 , GLN A:267 , LEU A:268 , GLY A:269 , ARG A:270 , HOH A:2363
BINDING SITE FOR RESIDUE GOL A1391
[
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
(1, 4)
Info
all PFAM domains
1a: PFAM_Amidohydro_5_2vunD01 (D:27-96)
1b: PFAM_Amidohydro_5_2vunD02 (D:27-96)
1c: PFAM_Amidohydro_5_2vunD03 (D:27-96)
1d: PFAM_Amidohydro_5_2vunD04 (D:27-96)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Amidohydrolase
(126)
Family
:
Amidohydro_5
(8)
Eubacterium barkeri (Clostridium barkeri)
(1)
1a
Amidohydro_5-2vunD01
D:27-96
1b
Amidohydro_5-2vunD02
D:27-96
1c
Amidohydro_5-2vunD03
D:27-96
1d
Amidohydro_5-2vunD04
D:27-96
[
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 (254 KB)
Header - Asym.Unit
Biol.Unit 1 (248 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
2VUN
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
