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.
2QUU
Asym. Unit
Info
Asym.Unit (268 KB)
Biol.Unit 1 (263 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
DIHYDROXYACETONE PHOSPHATE SCHIFF BASE INTERMEDIATE IN MUTANT FRUCTOSE-1,6-BISPHOSPHATE ALDOLASE FROM RABBIT MUSCLE
Authors
:
M. St-Jean, J. Sygusch
Date
:
06 Aug 07 (Deposition) - 28 Aug 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.98
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Aldolase, Mutant, Substrate, Schiff Base, Protonated Imine, Intermediate, Covalent, Acetylation, Glycolysis, Lyase, Phosphorylation
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. St-Jean, J. Sygusch
Stereospecific Proton Transfer By A Mobile Catalyst In Mammalian Fructose-1, 6-Bisphosphate Aldolase
J. Biol. Chem. V. 282 31028 2007
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 4)
Info
All Hetero Components
1a: 1,3-DIHYDROXYACETONEPHOSPHATE (13Pa)
1b: 1,3-DIHYDROXYACETONEPHOSPHATE (13Pb)
1c: 1,3-DIHYDROXYACETONEPHOSPHATE (13Pc)
1d: 1,3-DIHYDROXYACETONEPHOSPHATE (13Pd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
13P
4
Ligand/Ion
1,3-DIHYDROXYACETONEPHOSPHATE
[
close Hetero Component info
]
Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ALA A:31 , ASP A:33 , MET A:146 , LYS A:229 , SER A:271 , GLY A:272 , SER A:300 , TYR A:301 , GLY A:302 , ARG A:303 , HOH A:3003 , HOH A:3005 , HOH A:3006 , HOH A:3009
BINDING SITE FOR RESIDUE 13P A 3001
2
AC2
SOFTWARE
ALA B:31 , ASP B:33 , LYS B:229 , SER B:271 , GLY B:272 , SER B:300 , TYR B:301 , GLY B:302 , ARG B:303 , HOH B:3005 , HOH B:3006 , HOH B:3009 , HOH B:3010
BINDING SITE FOR RESIDUE 13P B 3002
3
AC3
SOFTWARE
ALA C:31 , ASP C:33 , LYS C:229 , SER C:271 , GLY C:272 , SER C:300 , TYR C:301 , GLY C:302 , ARG C:303 , HOH C:3007 , HOH C:3009 , HOH C:3012
BINDING SITE FOR RESIDUE 13P C 3003
4
AC4
SOFTWARE
ALA D:31 , ASP D:33 , LYS D:229 , SER D:271 , GLY D:272 , SER D:300 , TYR D:301 , GLY D:302 , ARG D:303 , TYR D:363 , HOH D:3020 , HOH D:3021 , HOH D:3022
BINDING SITE FOR RESIDUE 13P D 3004
[
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
(1, 4)
Info
All PROSITE Patterns/Profiles
1: ALDOLASE_CLASS_I (A:221-231,B:221-231,C:221-231,D:22...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ALDOLASE_CLASS_I
PS00158
Fructose-bisphosphate aldolase class-I active site.
ALDOA_RABIT
222-232
4
A:221-231
B:221-231
C:221-231
D:221-231
[
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, 4)
Info
All SCOP Domains
1a: SCOP_d2quua_ (A:)
1b: SCOP_d2quub_ (B:)
1c: SCOP_d2quuc_ (C:)
1d: SCOP_d2quud_ (D:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Aldolase
(457)
Family
:
Class I aldolase
(182)
Protein domain
:
Fructose-1,6-bisphosphate aldolase
(39)
Rabbit (Oryctolagus cuniculus), muscle isozyme [TaxId: 9986]
(25)
1a
d2quua_
A:
1b
d2quub_
B:
1c
d2quuc_
C:
1d
d2quud_
D:
[
close SCOP info
]
CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2quuA00 (A:1-363)
1b: CATH_2quuB00 (B:1-363)
1c: CATH_2quuC00 (C:1-363)
1d: CATH_2quuD00 (D:1-363)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Aldolase class I
(887)
Rabbit (Oryctolagus cuniculus)
(27)
1a
2quuA00
A:1-363
1b
2quuB00
B:1-363
1c
2quuC00
C:1-363
1d
2quuD00
D:1-363
[
close CATH info
]
Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Glycolytic_2quuD01 (D:14-363)
1b: PFAM_Glycolytic_2quuD02 (D:14-363)
1c: PFAM_Glycolytic_2quuD03 (D:14-363)
1d: PFAM_Glycolytic_2quuD04 (D:14-363)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Glycolytic]
(21)
Family
:
Glycolytic
(21)
Oryctolagus cuniculus (Rabbit)
(10)
1a
Glycolytic-2quuD01
D:14-363
1b
Glycolytic-2quuD02
D:14-363
1c
Glycolytic-2quuD03
D:14-363
1d
Glycolytic-2quuD04
D:14-363
[
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 (268 KB)
Header - Asym.Unit
Biol.Unit 1 (263 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
2QUU
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help