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.
2J4S
Biol. Unit 2
Info
Asym.Unit (164 KB)
Biol.Unit 1 (81 KB)
Biol.Unit 2 (81 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
P450 BM3 HEME DOMAIN IN COMPLEX WITH DMSO
Authors
:
J. Kuper, W. Tuck-Seng, D. Roccatano, M. Wilmanns, U. Schwaneberg
Date
:
05 Sep 06 (Deposition) - 15 May 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Flavoprotein, Monooxygenase, Metal-Binding, P450, Iron, Heme, Oxidoreductase, Dmso-Inhibition, Organic Solvent
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Kuper, T. S. Wong, D. Roccatano, M. Wilmanns, U. Schwaneberg
Understanding A Mechanism Of Organic Cosolvent Inactivation In Heme Monooxygenase P450 Bm-3.
J. Am. Chem. Soc. V. 129 5786 2007
[
close entry info
]
Hetero Components
(2, 4)
Info
All Hetero Components
1a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
1b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
2a: DI(HYDROXYETHYL)ETHER (PEGa)
2b: DI(HYDROXYETHYL)ETHER (PEGb)
2c: DI(HYDROXYETHYL)ETHER (PEGc)
2d: DI(HYDROXYETHYL)ETHER (PEGd)
2e: DI(HYDROXYETHYL)ETHER (PEGe)
3a: ZINC ION (ZNa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
HEM
1
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
2
PEG
3
Ligand/Ion
DI(HYDROXYETHYL)ETHER
3
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC3 (SOFTWARE)
3: AC6 (SOFTWARE)
4: AC7 (SOFTWARE)
5: AC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:338 , GLU A:348 , ASP B:23
BINDING SITE FOR RESIDUE ZN B1457
2
AC3
SOFTWARE
LYS B:69 , LEU B:86 , PHE B:87 , TRP B:96 , PHE B:107 , ALA B:264 , GLY B:265 , THR B:268 , THR B:269 , LEU B:272 , THR B:327 , PHE B:331 , PRO B:392 , PHE B:393 , GLY B:394 , ARG B:398 , ALA B:399 , CYS B:400 , ILE B:401 , GLY B:402 , ALA B:406 , HOH B:2204 , HOH B:2205 , HOH B:2207 , HOH B:2208 , HOH B:2209
BINDING SITE FOR RESIDUE HEM B1456
3
AC6
SOFTWARE
GLN B:27 , LYS B:31 , PEG B:1459
BINDING SITE FOR RESIDUE PEG B1458
4
AC7
SOFTWARE
VAL A:48 , LYS B:31 , PEG B:1458
BINDING SITE FOR RESIDUE PEG B1459
5
AC8
SOFTWARE
TRP A:90 , HIS A:92 , GLY A:350 , PRO B:18 , ASN B:21
BINDING SITE FOR RESIDUE PEG B1460
[
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
(1, 1)
Info
All PROSITE Patterns/Profiles
1: CYTOCHROME_P450 (B:393-402)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CYTOCHROME_P450
PS00086
Cytochrome P450 cysteine heme-iron ligand signature.
CPXB_BACMB
394-403
1
-
B:393-402
[
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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d2j4sa_ (A:)
1b: SCOP_d2j4sb_ (B:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Cytochrome P450
(480)
Superfamily
:
Cytochrome P450
(480)
Family
:
Cytochrome P450
(323)
Protein domain
:
Cytochrome P450 bm-3
(60)
Bacillus megaterium [TaxId: 1404]
(60)
1a
d2j4sa_
A:
1b
d2j4sb_
B:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2j4sB00 (B:1-455)
1b: CATH_2j4sA00 (A:1-455)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Cytochrome p450
(271)
Homologous Superfamily
:
Cytochrome p450
(271)
Bacillus megaterium. Organism_taxid: 1404.
(9)
1a
2j4sB00
B:1-455
1b
2j4sA00
A:1-455
[
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 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 (164 KB)
Header - Asym.Unit
Biol.Unit 1 (81 KB)
Header - Biol.Unit 1
Biol.Unit 2 (81 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
2J4S
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help