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.
2OR0
Asym. Unit
Info
Asym.Unit (144 KB)
Biol.Unit 1 (68 KB)
Biol.Unit 2 (72 KB)
Biol.Unit 3 (268 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
STRUCTURAL GENOMICS, THE CRYSTAL STRUCTURE OF A PUTATIVE HYDROXYLASE FROM RHODOCOCCUS SP. RHA1
Authors
:
K. Tan, T. Skarina, O. Kagen, A. Savchenko, A. Edwards, A. Joachimiak, M Center For Structural Genomics (Mcsg)
Date
:
01 Feb 07 (Deposition) - 06 Mar 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: A,B (2x)
Keywords
:
Apc7385, Putative Hydroxylase, Rhodococcus Sp. Rha1, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Tan, T. Skarina, O. Kagen, A. Savchenko, A. Edwards, A. Joachimiak
The Crystal Structure Of A Putative Hydroxylase From Rhodococcus Sp. Rha1
To Be Published
[
close entry info
]
Hetero Components
(2, 35)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
1e: ACETATE ION (ACTe)
1f: ACETATE ION (ACTf)
1g: ACETATE ION (ACTg)
1h: ACETATE ION (ACTh)
1i: ACETATE ION (ACTi)
1j: ACETATE ION (ACTj)
1k: ACETATE ION (ACTk)
1l: ACETATE ION (ACTl)
2a: SELENOMETHIONINE (MSEa)
2b: SELENOMETHIONINE (MSEb)
2c: SELENOMETHIONINE (MSEc)
2d: SELENOMETHIONINE (MSEd)
2e: SELENOMETHIONINE (MSEe)
2f: SELENOMETHIONINE (MSEf)
2g: SELENOMETHIONINE (MSEg)
2h: SELENOMETHIONINE (MSEh)
2i: SELENOMETHIONINE (MSEi)
2j: SELENOMETHIONINE (MSEj)
2k: SELENOMETHIONINE (MSEk)
2l: SELENOMETHIONINE (MSEl)
2m: SELENOMETHIONINE (MSEm)
2n: SELENOMETHIONINE (MSEn)
2o: SELENOMETHIONINE (MSEo)
2p: SELENOMETHIONINE (MSEp)
2q: SELENOMETHIONINE (MSEq)
2r: SELENOMETHIONINE (MSEr)
2s: SELENOMETHIONINE (MSEs)
2t: SELENOMETHIONINE (MSEt)
2u: SELENOMETHIONINE (MSEu)
2v: SELENOMETHIONINE (MSEv)
2w: SELENOMETHIONINE (MSEw)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
12
Ligand/Ion
ACETATE ION
2
MSE
23
Mod. Amino Acid
SELENOMETHIONINE
[
close Hetero Component info
]
Sites
(12, 12)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:205 , ARG A:213 , HOH A:821
BINDING SITE FOR RESIDUE ACT A 601
02
AC2
SOFTWARE
PRO B:159 , ASN B:205 , ARG B:213
BINDING SITE FOR RESIDUE ACT B 602
03
AC3
SOFTWARE
ARG B:313 , ARG B:388
BINDING SITE FOR RESIDUE ACT B 603
04
AC4
SOFTWARE
ARG A:259 , HOH A:865 , HOH A:886
BINDING SITE FOR RESIDUE ACT A 604
05
AC5
SOFTWARE
GLY A:129 , ASN B:104 , ASP B:105
BINDING SITE FOR RESIDUE ACT B 605
06
AC6
SOFTWARE
ARG B:37 , ASP B:105 , TRP B:107 , HIS B:139 , HOH B:762
BINDING SITE FOR RESIDUE ACT B 606
07
AC7
SOFTWARE
ASP A:211 , PHE A:310 , ARG A:313 , ARG A:388
BINDING SITE FOR RESIDUE ACT A 607
08
AC8
SOFTWARE
GLU A:279 , HOH A:670 , ARG B:329 , PRO B:367
BINDING SITE FOR RESIDUE ACT B 608
09
AC9
SOFTWARE
GLY B:2 , VAL B:4 , GLU B:59 , HOH B:878
BINDING SITE FOR RESIDUE ACT B 609
10
BC1
SOFTWARE
VAL A:366 , PRO A:367 , GLY A:368 , PRO A:369 , HOH A:883 , TYR B:272 , VAL B:273 , ARG B:337 , HOH B:883
BINDING SITE FOR RESIDUE ACT A 610
11
BC2
SOFTWARE
TRP A:325 , ARG A:329 , ASP A:332 , HIS A:357 , LEU A:360 , GLU B:333 , ALA B:336
BINDING SITE FOR RESIDUE ACT A 611
12
BC3
SOFTWARE
ARG A:213
BINDING SITE FOR RESIDUE ACT A 612
[
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
(3, 6)
Info
all CATH domains
1a: CATH_2or0B01 (B:-17-106)
1b: CATH_2or0A01 (A:2-106)
2a: CATH_2or0A03 (A:206-391)
2b: CATH_2or0B03 (B:206-391)
3a: CATH_2or0B02 (B:107-205)
3b: CATH_2or0A02 (A:107-205)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Butyryl-Coa Dehydrogenase, subunit A; domain 1
(28)
Homologous Superfamily
:
Butyryl-Coa Dehydrogenase, subunit A, domain 1
(28)
Rha1 (Rhodococcus sp)
(2)
1a
2or0B01
B:-17-106
1b
2or0A01
A:2-106
Architecture
:
Up-down Bundle
(3216)
Topology
:
Butyryl-CoA Dehydrogenase, subunit A; domain 3
(76)
Homologous Superfamily
:
Butyryl-CoA Dehydrogenase, subunit A, domain 3
(37)
Rha1 (Rhodococcus sp)
(2)
2a
2or0A03
A:206-391
2b
2or0B03
B:206-391
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Butyryl-CoA Dehydrogenase, subunit A; domain 2
(35)
Homologous Superfamily
:
Butyryl-CoA Dehydrogenase, subunit A, domain 2
(35)
Rha1 (Rhodococcus sp)
(2)
3a
2or0B02
B:107-205
3b
2or0A02
A:107-205
[
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
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 (144 KB)
Header - Asym.Unit
Biol.Unit 1 (68 KB)
Header - Biol.Unit 1
Biol.Unit 2 (72 KB)
Header - Biol.Unit 2
Biol.Unit 3 (268 KB)
Header - Biol.Unit 3
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
2OR0
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help