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.
1ZO4
Biol. Unit 2
Info
Asym.Unit (184 KB)
Biol.Unit 1 (91 KB)
Biol.Unit 2 (92 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 A328S MUTANT OF THE HEME DOMAIN OF P450BM-3
Authors
:
A. Hegda, B. Chen, D. C. Haines, M. Bondlela, D. Mullin, S. E. Graham, D. R. Tomchick, M. Machius, J. A. Peterson
Date
:
12 May 05 (Deposition) - 01 Aug 06 (Release) - 22 Feb 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.46
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Cytochrome P-450, Hemeprotein A328S, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. C. Haines, A. Hegde, B. Chen, W. Zhao, M. Bondlela, J. M. Humphreys, D. A. Mullin, D. R. Tomchick, M. Machius, J. A. Peterson
A Single Active-Site Mutation Of P450Bm-3 Dramatically Enhances Substrate Binding And Rate Of Product Formation.
Biochemistry V. 50 8333 2011
[
close entry info
]
Hetero Components
(3, 11)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
1e: GLYCEROL (GOLe)
1f: GLYCEROL (GOLf)
1g: GLYCEROL (GOLg)
1h: GLYCEROL (GOLh)
1i: GLYCEROL (GOLi)
1j: GLYCEROL (GOLj)
1k: GLYCEROL (GOLk)
1l: GLYCEROL (GOLl)
1m: GLYCEROL (GOLm)
1n: GLYCEROL (GOLn)
1o: GLYCEROL (GOLo)
1p: GLYCEROL (GOLp)
1q: GLYCEROL (GOLq)
1r: GLYCEROL (GOLr)
1s: GLYCEROL (GOLs)
1t: GLYCEROL (GOLt)
2a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
2b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
3a: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESa)
3b: 2-(N-MORPHOLINO)-ETHANESULFONIC AC... (MESb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
9
Ligand/Ion
GLYCEROL
2
HEM
1
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
3
MES
1
Ligand/Ion
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
[
close Hetero Component info
]
Sites
(11, 11)
Info
All Sites
01: AC2 (SOFTWARE)
02: AC3 (SOFTWARE)
03: AC5 (SOFTWARE)
04: AC7 (SOFTWARE)
05: AC9 (SOFTWARE)
06: BC1 (SOFTWARE)
07: BC2 (SOFTWARE)
08: BC3 (SOFTWARE)
09: BC4 (SOFTWARE)
10: BC7 (SOFTWARE)
11: CC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC2
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 , ALA B:406 , HOH B:1493 , HOH B:1494 , HOH B:1496 , HOH B:1499 , HOH B:1500 , HOH B:1540 , HOH B:1895
BINDING SITE FOR RESIDUE HEM B 471
02
AC3
SOFTWARE
HIS B:285 , ARG B:375 , GLU B:377 , HOH B:1546 , HOH B:1871
BINDING SITE FOR RESIDUE MES B 1490
03
AC5
SOFTWARE
GLN A:128 , ARG A:132 , ASP B:121 , ARG B:161
BINDING SITE FOR RESIDUE GOL B 1470
04
AC7
SOFTWARE
TYR A:166 , ARG A:167 , HOH A:1550 , LYS B:129 , LEU B:133 , ASP B:168 , HOH B:1645 , HOH B:1718
BINDING SITE FOR RESIDUE GOL A 1472
05
AC9
SOFTWARE
PHE B:390 , LYS B:391 , PRO B:392 , PHE B:393 , GLY B:394 , GLN B:403 , GOL B:1475 , HOH B:1559 , HOH B:1835
BINDING SITE FOR RESIDUE GOL B 1474
06
BC1
SOFTWARE
LYS B:391 , GLY B:394 , ASN B:395 , GLY B:396 , GLN B:403 , GOL B:1474
BINDING SITE FOR RESIDUE GOL B 1475
07
BC2
SOFTWARE
GLY B:83 , ASP B:84 , GLU B:252 , TYR B:256 , HOH B:1678
BINDING SITE FOR RESIDUE GOL B 1477
08
BC3
SOFTWARE
GLU B:247 , LYS B:282 , HOH B:1676 , HOH B:1879
BINDING SITE FOR RESIDUE GOL B 1478
09
BC4
SOFTWARE
ARG A:132 , ASP B:121 , VAL B:124 , HOH B:1668
BINDING SITE FOR RESIDUE GOL B 1479
10
BC7
SOFTWARE
GLY B:240 , LYS B:241 , HOH B:1908
BINDING SITE FOR RESIDUE GOL B 1483
11
CC3
SOFTWARE
VAL B:302 , PRO B:303 , SER B:304 , HOH B:1622 , HOH B:1868
BINDING SITE FOR RESIDUE GOL B 1488
[
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_d1zo4a_ (A:)
1b: SCOP_d1zo4b_ (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
d1zo4a_
A:
1b
d1zo4b_
B:
[
close SCOP info
]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1zo4A00 (A:1-456)
1b: CATH_1zo4B00 (B:1-457)
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.
(20)
1a
1zo4A00
A:1-456
1b
1zo4B00
B:1-457
[
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 (184 KB)
Header - Asym.Unit
Biol.Unit 1 (91 KB)
Header - Biol.Unit 1
Biol.Unit 2 (92 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
1ZO4
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help