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.
2UVE
Biol. Unit 1
Info
Asym.Unit (200 KB)
Biol.Unit 1 (98 KB)
Biol.Unit 2 (99 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
STRUCTURE OF YERSINIA ENTEROCOLITICA FAMILY 28 EXOPOLYGALACTURONASE
Authors
:
D. W. Abbott, A. B. Boraston
Date
:
09 Mar 07 (Deposition) - 08 May 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.19
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Gh28, Pectin, Cell Wall, Hydrolase, Periplasm, Yersinia Enterocolitica, Beta-Helix, Glycosidase, Exo-Activity
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. W. Abbott, A. B. Boraston
The Structural Basis For Exopolygalacturonase Activity In A Family 28 Glycoside Hydrolase.
J. Mol. Biol. V. 368 1215 2007
[
close entry info
]
Hetero Components
(1, 11)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
2a: NICKEL (II) ION (NIa)
2b: NICKEL (II) ION (NIb)
2c: NICKEL (II) ION (NIc)
2d: NICKEL (II) ION (NId)
2e: NICKEL (II) ION (NIe)
2f: NICKEL (II) ION (NIf)
2g: NICKEL (II) ION (NIg)
2h: NICKEL (II) ION (NIh)
2i: NICKEL (II) ION (NIi)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
3h: SULFATE ION (SO4h)
3i: SULFATE ION (SO4i)
3j: SULFATE ION (SO4j)
3k: SULFATE ION (SO4k)
3l: SULFATE ION (SO4l)
3m: SULFATE ION (SO4m)
3n: SULFATE ION (SO4n)
3o: SULFATE ION (SO4o)
3p: SULFATE ION (SO4p)
3q: SULFATE ION (SO4q)
3r: SULFATE ION (SO4r)
3s: SULFATE ION (SO4s)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
-1
Ligand/Ion
ACETATE ION
2
NI
-1
Ligand/Ion
NICKEL (II) ION
3
SO4
11
Ligand/Ion
SULFATE ION
[
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
ASP A:376 , GLY A:401 , HIS A:435 , HOH A:2118 , HOH A:2126 , HOH A:2127
BINDING SITE FOR RESIDUE NI A1607
02
AC2
SOFTWARE
ASP A:270 , ARG A:276
BINDING SITE FOR RESIDUE NI A1608
03
AC3
SOFTWARE
ASP A:83
BINDING SITE FOR RESIDUE NI A1609
04
AC4
SOFTWARE
HOH A:2039 , HOH A:2129
BINDING SITE FOR RESIDUE NI A1610
05
AC5
SOFTWARE
TYR A:230 , ARG A:231 , GLU A:239 , PRO A:250 , ARG A:337
BINDING SITE FOR RESIDUE SO4 A1611
06
AC6
SOFTWARE
LYS A:58 , ARG A:483
BINDING SITE FOR RESIDUE SO4 A1612
07
AC7
SOFTWARE
ASN A:378 , ASN A:379 , HOH A:2172 , HOH A:2173
BINDING SITE FOR RESIDUE SO4 A1613
08
AC8
SOFTWARE
PRO A:566 , GLY A:587 , ASP A:588 , THR A:589 , HIS A:592
BINDING SITE FOR RESIDUE SO4 A1614
09
AC9
SOFTWARE
TYR A:94 , ARG A:288 , ILE A:371 , GLN A:373 , PHE A:397
BINDING SITE FOR RESIDUE SO4 A1615
10
BC1
SOFTWARE
SER A:575 , GLU A:576 , ASN A:598 , VAL A:599 , LYS A:600
BINDING SITE FOR RESIDUE SO4 A1616
11
BC2
SOFTWARE
PHE A:88 , SER A:89 , PRO A:90 , HOH A:2174
BINDING SITE FOR RESIDUE SO4 A1617
12
BC3
SOFTWARE
ASP A:167 , GLY A:168 , LYS A:169
BINDING SITE FOR RESIDUE SO4 A1618
13
BC4
SOFTWARE
ARG A:240 , PHE A:354 , HIS A:355 , HOH A:2175 , HOH A:2176
BINDING SITE FOR RESIDUE SO4 A1619
14
BC5
SOFTWARE
ALA A:47 , TYR A:48 , ASP A:49 , SER A:52 , ARG A:262 , TYR A:343 , HOH A:2177
BINDING SITE FOR RESIDUE SO4 A1620
15
BC6
SOFTWARE
SER A:442 , LYS A:468
BINDING SITE FOR RESIDUE SO4 A1621
16
BC7
SOFTWARE
HIS A:97 , HOH A:2023 , HOH A:2077 , HIS B:97 , HOH B:2049 , HOH B:2155
BINDING SITE FOR RESIDUE NI B1607
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(, 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.
(no "Exon" information available for biological units yet)
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
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 (200 KB)
Header - Asym.Unit
Biol.Unit 1 (98 KB)
Header - Biol.Unit 1
Biol.Unit 2 (99 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
2UVE
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
