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.
2Q04
Biol. Unit 4
Info
Asym.Unit (216 KB)
Biol.Unit 1 (40 KB)
Biol.Unit 10 (170 KB)
Biol.Unit 11 (169 KB)
Biol.Unit 2 (39 KB)
Biol.Unit 3 (37 KB)
Biol.Unit 4 (39 KB)
Biol.Unit 5 (39 KB)
Biol.Unit 6 (37 KB)
Biol.Unit 7 (203 KB)
Biol.Unit 8 (135 KB)
Biol.Unit 9 (74 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 ACETOIN UTILIZATION PROTEIN (ZP_00540088.1) FROM EXIGUOBACTERIUM SIBIRICUM 255-15 AT 2.33 A RESOLUTION
Authors
:
Joint Center For Structural Genomics (Jcsg)
Date
:
18 May 07 (Deposition) - 12 Jun 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.33
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: E (1x)
Biol. Unit 6: F (1x)
Biol. Unit 7: A,B,C,D,E,F (1x)
Biol. Unit 8: C,D,E,F (1x)
Biol. Unit 9: A,B (1x)
Biol. Unit 10: A,C,D,E,F (1x)
Biol. Unit 11: B,C,D,E,F (1x)
Keywords
:
Zp_00540088. 1, Acetoin Utilization Protein, Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Acetoin Utilization Protein (Zp_00540088. 1) From Exiguobacterium Sibiricum 255-15 At 2. 33 A Resolution
To Be Published
[
close entry info
]
Hetero Components
(2, 10)
Info
All Hetero Components
1a: ACETIC ACID (ACYa)
1b: ACETIC ACID (ACYb)
1c: ACETIC ACID (ACYc)
1d: ACETIC ACID (ACYd)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
2e: CALCIUM ION (CAe)
2f: CALCIUM ION (CAf)
2g: CALCIUM ION (CAg)
3a: 1,2-ETHANEDIOL (EDOa)
3b: 1,2-ETHANEDIOL (EDOb)
3c: 1,2-ETHANEDIOL (EDOc)
3d: 1,2-ETHANEDIOL (EDOd)
3e: 1,2-ETHANEDIOL (EDOe)
3f: 1,2-ETHANEDIOL (EDOf)
3g: 1,2-ETHANEDIOL (EDOg)
4a: SELENOMETHIONINE (MSEa)
4aa: SELENOMETHIONINE (MSEaa)
4ab: SELENOMETHIONINE (MSEab)
4ac: SELENOMETHIONINE (MSEac)
4ad: SELENOMETHIONINE (MSEad)
4ae: SELENOMETHIONINE (MSEae)
4af: SELENOMETHIONINE (MSEaf)
4ag: SELENOMETHIONINE (MSEag)
4ah: SELENOMETHIONINE (MSEah)
4ai: SELENOMETHIONINE (MSEai)
4aj: SELENOMETHIONINE (MSEaj)
4ak: SELENOMETHIONINE (MSEak)
4al: SELENOMETHIONINE (MSEal)
4am: SELENOMETHIONINE (MSEam)
4an: SELENOMETHIONINE (MSEan)
4ao: SELENOMETHIONINE (MSEao)
4ap: SELENOMETHIONINE (MSEap)
4aq: SELENOMETHIONINE (MSEaq)
4ar: SELENOMETHIONINE (MSEar)
4as: SELENOMETHIONINE (MSEas)
4b: SELENOMETHIONINE (MSEb)
4c: SELENOMETHIONINE (MSEc)
4d: SELENOMETHIONINE (MSEd)
4e: SELENOMETHIONINE (MSEe)
4f: SELENOMETHIONINE (MSEf)
4g: SELENOMETHIONINE (MSEg)
4h: SELENOMETHIONINE (MSEh)
4i: SELENOMETHIONINE (MSEi)
4j: SELENOMETHIONINE (MSEj)
4k: SELENOMETHIONINE (MSEk)
4l: SELENOMETHIONINE (MSEl)
4m: SELENOMETHIONINE (MSEm)
4n: SELENOMETHIONINE (MSEn)
4o: SELENOMETHIONINE (MSEo)
4p: SELENOMETHIONINE (MSEp)
4q: SELENOMETHIONINE (MSEq)
4r: SELENOMETHIONINE (MSEr)
4s: SELENOMETHIONINE (MSEs)
4t: SELENOMETHIONINE (MSEt)
4u: SELENOMETHIONINE (MSEu)
4v: SELENOMETHIONINE (MSEv)
4w: SELENOMETHIONINE (MSEw)
4x: SELENOMETHIONINE (MSEx)
4y: SELENOMETHIONINE (MSEy)
4z: SELENOMETHIONINE (MSEz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACY
-1
Ligand/Ion
ACETIC ACID
2
CA
-1
Ligand/Ion
CALCIUM ION
3
EDO
2
Ligand/Ion
1,2-ETHANEDIOL
4
MSE
8
Mod. Amino Acid
SELENOMETHIONINE
[
close Hetero Component info
]
Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: BC2 (SOFTWARE)
3: BC3 (SOFTWARE)
4: BC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
THR D:133 , HOH D:222 , HOH D:248 , HOH D:249 , HOH D:250
BINDING SITE FOR RESIDUE CA D 211
2
BC2
SOFTWARE
ASP C:170 , ARG C:205 , ARG C:206 , PHE C:207 , TYR D:136 , TRP D:137
BINDING SITE FOR RESIDUE EDO C 212
3
BC3
SOFTWARE
GLU D:59 , ARG D:61 , TYR D:128
BINDING SITE FOR RESIDUE EDO D 212
4
BC4
SOFTWARE
PRO D:172 , GLU D:173 , SER D:176
BINDING SITE FOR RESIDUE EDO D 213
[
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
(1, 6)
Info
all CATH domains
1a: CATH_2q04F00 (F:5-207)
1b: CATH_2q04B00 (B:2-207)
1c: CATH_2q04C00 (C:2-209)
1d: CATH_2q04D00 (D:0-209)
1e: CATH_2q04E00 (E:0-209)
1f: CATH_2q04A00 (A:0-210)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Aminopeptidase
(284)
Homologous Superfamily
:
[code=3.40.630.30, no name defined]
(126)
Exiguobacterium sibiricum 255-15. Organism_taxid: 262543. Strain: 255-15.
(1)
1a
2q04F00
F:5-207
1b
2q04B00
B:2-207
1c
2q04C00
C:2-209
1d
2q04D00
D:0-209
1e
2q04E00
E:0-209
1f
2q04A00
A:0-210
[
close CATH info
]
Pfam Domains
(1, 6)
Info
all PFAM domains
1a: PFAM_Acetyltransf_1_2q04F01 (F:65-136)
1b: PFAM_Acetyltransf_1_2q04F02 (F:65-136)
1c: PFAM_Acetyltransf_1_2q04F03 (F:65-136)
1d: PFAM_Acetyltransf_1_2q04F04 (F:65-136)
1e: PFAM_Acetyltransf_1_2q04F05 (F:65-136)
1f: PFAM_Acetyltransf_1_2q04F06 (F:65-136)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Acetyltrans
(109)
Family
:
Acetyltransf_1
(58)
Exiguobacterium sibiricum (strain DSM 17290 / JCM 13490 / 255-15)
(1)
1a
Acetyltransf_1-2q04F01
F:65-136
1b
Acetyltransf_1-2q04F02
F:65-136
1c
Acetyltransf_1-2q04F03
F:65-136
1d
Acetyltransf_1-2q04F04
F:65-136
1e
Acetyltransf_1-2q04F05
F:65-136
1f
Acetyltransf_1-2q04F06
F:65-136
[
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 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 (216 KB)
Header - Asym.Unit
Biol.Unit 1 (40 KB)
Header - Biol.Unit 1
Biol.Unit 10 (170 KB)
Header - Biol.Unit 10
Biol.Unit 11 (169 KB)
Header - Biol.Unit 11
Biol.Unit 2 (39 KB)
Header - Biol.Unit 2
Biol.Unit 3 (37 KB)
Header - Biol.Unit 3
Biol.Unit 4 (39 KB)
Header - Biol.Unit 4
Biol.Unit 5 (39 KB)
Header - Biol.Unit 5
Biol.Unit 6 (37 KB)
Header - Biol.Unit 6
Biol.Unit 7 (203 KB)
Header - Biol.Unit 7
Biol.Unit 8 (135 KB)
Header - Biol.Unit 8
Biol.Unit 9 (74 KB)
Header - Biol.Unit 9
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
2Q04
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help