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.
1UN9
Asym. Unit
Info
Asym.Unit (169 KB)
Biol.Unit 1 (162 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
CRYSTAL STRUCTURE OF THE DIHYDROXYACETONE KINASE FROM C. FREUNDII IN COMPLEX WITH AMP-PNP AND MG2+
Authors
:
C. Siebold, I. Arnold, L. F. Garcia-Alles, U. Baumann, B. Erni
Date
:
08 Sep 03 (Deposition) - 30 Oct 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.10
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Kinase, Glycerone Kinase, Dha Kinase, Dihydroxyacetone Kinase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. Siebold, I. Arnold, L. F. Garcia-Alles, U. Baumann, B. Erni
Crystal Structure Of The Citrobacter Freundii Dihydroxyacetone Kinase Reveals An Eight-Stranded Alpha-Helical Barrel Atp-Binding Domain
J. Biol. Chem. V. 278 48236 2003
[
close entry info
]
Hetero Components
(3, 8)
Info
All Hetero Components
1a: DIHYDROXYACETONE (2HAa)
1b: DIHYDROXYACETONE (2HAb)
2a: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPa)
2b: PHOSPHOAMINOPHOSPHONIC ACID-ADENYL... (ANPb)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
3c: MAGNESIUM ION (MGc)
3d: MAGNESIUM ION (MGd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
2HA
2
Ligand/Ion
DIHYDROXYACETONE
2
ANP
2
Ligand/Ion
PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
3
MG
4
Ligand/Ion
MAGNESIUM ION
[
close Hetero Component info
]
Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:380 , ASP A:385 , ASP A:387 , ANP A:1551
BINDING SITE FOR RESIDUE MG A1552
2
AC2
SOFTWARE
ASP A:385 , ASP A:387 , ANP A:1551
BINDING SITE FOR RESIDUE MG A1553
3
AC3
SOFTWARE
ASP B:380 , ASP B:385 , ASP B:387 , ANP B:1551
BINDING SITE FOR RESIDUE MG B1552
4
AC4
SOFTWARE
ASP B:385 , ASP B:387 , ANP B:1551
BINDING SITE FOR RESIDUE MG B1553
5
AC5
SOFTWARE
ASP A:385 , ASP A:387 , THR A:388 , THR A:391 , GLY A:430 , SER A:431 , SER A:432 , LEU A:435 , GLY A:468 , ALA A:470 , THR A:476 , MET A:477 , ASP A:533 , GLY A:535 , MG A:1552 , MG A:1553
BINDING SITE FOR RESIDUE ANP A1551
6
AC6
SOFTWARE
GLY A:57 , GLY A:58 , HIS A:61 , PHE A:83 , ALA A:84 , LYS A:109 , ASP A:114 , HIS A:220
BINDING SITE FOR RESIDUE 2HA A1554
7
AC7
SOFTWARE
ASP B:380 , ASP B:385 , ASP B:387 , THR B:388 , GLY B:430 , SER B:431 , SER B:432 , LEU B:435 , MET B:464 , GLY B:468 , ALA B:470 , THR B:476 , MET B:477 , ILE B:478 , ASP B:533 , PRO B:534 , GLY B:535 , MG B:1552 , MG B:1553
BINDING SITE FOR RESIDUE ANP B1551
8
AC8
SOFTWARE
GLY B:57 , GLY B:58 , HIS B:61 , PHE B:83 , LYS B:109 , ASP B:114 , HIS B:220
BINDING SITE FOR RESIDUE 2HA B1554
[
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
(2, 4)
Info
All PROSITE Patterns/Profiles
1: DHAK (A:8-327,B:8-327)
2: DHAL (A:356-548,B:356-548)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
DHAK
PS51481
DhaK domain profile.
DHAK_CITFR
8-327
2
A:8-327
B:8-327
2
DHAL
PS51480
DhaL domain profile.
DHAK_CITFR
356-548
2
A:356-548
B:356-548
[
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
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1un9a1 (A:336-550)
1b: SCOP_d1un9b1 (B:336-550)
2a: SCOP_d1un9a4 (A:1-335)
2b: SCOP_d1un9b4 (B:1-335)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
DhaL-like
(6)
Superfamily
:
DhaL-like
(6)
Family
:
DhaL-like
(3)
Protein domain
:
Citrobacter dihydroxyacetone kinase extra ATP-binding domain
(2)
Citrobacter freundii [TaxId: 546]
(2)
1a
d1un9a1
A:336-550
1b
d1un9b1
B:336-550
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
DAK1/DegV-like
(26)
Superfamily
:
DAK1/DegV-like
(26)
Family
:
DAK1
(12)
Protein domain
:
Dihydroxyacetone kinase
(2)
Citrobacter freundii [TaxId: 546]
(2)
2a
d1un9a4
A:1-335
2b
d1un9b4
B:1-335
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
]
Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_Dak1_1un9B01 (B:22-331)
1b: PFAM_Dak1_1un9B02 (B:22-331)
2a: PFAM_Dak2_1un9B03 (B:382-548)
2b: PFAM_Dak2_1un9B04 (B:382-548)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
EDD
(22)
Family
:
Dak1
(10)
Citrobacter freundii
(2)
1a
Dak1-1un9B01
B:22-331
1b
Dak1-1un9B02
B:22-331
Clan
:
no clan defined [family: Dak2]
(3)
Family
:
Dak2
(3)
Citrobacter freundii
(2)
2a
Dak2-1un9B03
B:382-548
2b
Dak2-1un9B04
B:382-548
[
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 (169 KB)
Header - Asym.Unit
Biol.Unit 1 (162 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
1UN9
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help
